DNA•VIEW version 28.49
September 17, 2007
Beta version 28.68
April 4, 2008
Beta version 28.73
April 25, 2008
Installation instructions
|
recent features & fixes –
- DNA exclusion – Show exclusion probability as 0.99999999+, never as 1. 28.51
- Disaster Screen
- improve accuracy with better population analysis 28.73
- separate threshold parameter for each relationship 28.49
- New command – Worklist Sizes – simple and useful new command
under to
display/prepare a report showing the DNA profiles for a selected worklist/membrane 28.46
-
New command – Y databases under
(Y-database facilities rearranged and enhanced 28.45) includes:
- Analyze Y database statistics under Y databases
– shows various statistics of the installed Y-haplotype databases 28.42
- include "Matching LR for new type" 28.51. improve calculation 28.52
- Install Y-haplotype databases from worklist
– converts one or several worklists to Y-haplotype database, adds them to the list of Y-haplotype databases 28.45
- Rename, reorder, delete Y-databases 28.45
- Y-haplotype matching odds – same as in menu 28.45
- Miscellaneous
- Plot more plots
- bugfix – fix scaling bug 28.55
- cleaner – insist on same locus for additional plots 28.55
- File Compress – ctrl-enter forces re-writing of a file 28.51
- Y haplotype odds allows # instead of an allele number to select a random allele size.
(Alternatively type a race letter to select random allele from that race.) 28.46
- Database similarity test menu simplified including new options Compute p-value for one locus and
Compute individual p-valueS for each locus to help explore data. 28.46
- Printout database – optionally show allele probabilities (i.e. taking
into account minimum frequency and add-observed-allele-to-database parameters) and/or
sample frequency. 28.46
- Kinship – dropout option Dropout [NOT] allowed (FOR ROLES __) toggle
same as for automatic version of kinship 28.68
- Paternity/Crime/Automatic Kinship Case
- mixed stain calculator
- (experimental) allow half-integer unknown contributors (as approximation to dropped-out alleles) 28.64
- better treatment of default # of unknowns 28.64
- calculate family trio checks if both parents are as alleged; reports probability assuming 50% priors 28.55
- display raw sizes to see all genetic data for the case (same as display raw sizes
under immigration/kinship) 28.45
- immigration/kinship
- Simulation
- cleaner display of distribution deciles 28.67
- Browse implements a friendly way to return to previous simulations 28.56
- Export all nnn LR's and distribution graph creates
file from which Excel can make a beautiful graph 28.55
- (also as main menu command) bugfix – take correct account of homozygous loci. Previously
allele was counted only once, thus underestimating racial discrimination. 28.56
- Kinship log report documents databases used. 28.46
- Import/Export Genotyper/GeneMapper import
- GeneMapper Import
- New "Select on ..." option allows filtering the input file – accepting some samples and discarding others 28.49
- Allow importing of a case comment (an input field headed "Comment"). 27.48
- Reduce chance of user error by not putting a red bar on the list of membranes/worklists. 27.47
- Recognize loci better, e.g. Penta's, Y-loci 27.47
- bugfixes
- various minor bugfixes 28.67
- HW test Import columnar genotype crashed. 28.58
- Paternity etc. Case Find commment – don't crash. 28.57
- (also as main menu command) bugfix – take correct account of homozygous loci. Previously
allele was counted only once, thus underestimating racial discrimination. 28.56
- Plot bugfix – fix scaling bug when multiple plots 28.55
- allow Assign Race to worklist with very large worklist. Faster too. 28.55
- Paternity Case
- Don't consider random man mutation 28.51
- test calculation examples – more accurate reference answers 28.51
- don't hold cases so greedily when user departs 28.47
- Immigration/Kinship – posterior probability of 9.8/1 million is 0.001%, not 0.000 28.51
- allow printing to COM port 28.51
- Y-haplotype odds
- "person" button works now 28.47
- # correctly creates a locus list 28.45
|
| DNA•VIEW version history
Miscellaneous
Case
Database
disaster analysis
DNA odds/exclusion/Y-haplotype
DNA Profiles
Import/Export
Independence of Loci, HW test
Kinship
Maintenance
Membrane
Options
Plot
racial tools
bug fixes
|
|---|
- Miscellaneous
- File Compress – allow ctrl-enter to force re-writing of a file 28.51
- tidier input memory 28.46
- menu reorganized. Save as and Retrieve replace
the former unclear option ASCII 28.42
- When a locus is "inactive" remove it from the locus-order list 28.28
- Search NDIS for relatives Custom feature under development (extra cost option)
27.41, 28.11, 28.24
- new PCR Parameter for genetic category (e.g. Y-chromosome) of locus
28.01
- better FileCompress 28.09
- Installation creates desktop folder with icons including new maintenance facility REPAIR. 27.47
- Spanish language option (work in progress) 27.36
- Profile data New command summarizes available data across several selected membranes,
shows details of any typing conflicts 27.34
- Input memory for fill-in responses: 27.24 27.23
- PgUp/PgDwn (or Ctrl-Dwn-arrow)
scroll to a previous input line. 27.23
- Up/Dwn arrows also scroll unless harnessed as screen movement. 27.23
- PgUp/PgDwn scroll through previous responses to multi-line input
(e.g. Kinship Type in scenario). 27.24
- Ctrl-Shift-Delete removes an item from the memory of responses. 27.24
- Ctrl-Up-Arrow pops up a menu of previous responses. 27.24
- select from the menu 27.24
- DEL deletes an item from the list of previous responses. 27.24
- Ctrl-z restores the original response.
- Race selection dialogue clearer 27.23
- On sign-off, better instructions for clearing phantom user names 27.21
- Main screen shows the location of DNA•VIEW inconspicuously 27.19
- "Multiplex" definition (e.g. for Simulate) allows specification of a range
of loci – useful for SNP's 27.19
- Read, Tablet Check send extra character to drive Graphtec under XP 27.18
- Create Katrina Cases Hurricane Katrina victim identification custom feature 27.31
- Honor previous role assignments. 27.47
- accept kin names; add to rather than replace former definitions 27.32
- creates cases from kinship spreadsheet 27.34
- Pro Busqueda special: Parse Probusq File
creates cases from kinship spreadsheet 27.16
bugfix – don't assign a victim role to a reference
- allow deleting just the roster of a membrane/worklist 27.11
- Quit DNA•VIEW – new name for Exit from DNA•VIEW easier to type
(because it is the only command beginning with Q) and more expected to a Windows user. 27.11
- When editing things like Kinship scenario or Options
DNA-VIEW report title, Ctrl-Ins/Del will insert or remove a line. 27.09
- Exit from DNA•VIEW better display/explanation of
clearing spurious sign-ons 27.06
- text input recognizes arrows for navigation,
Ctrl-z to restore original text 27.04
- bugfix (from ver 25.96) – no need to exit, restart after update 25.99
- Paradox.net file is always in the Paradox directory. The former unnecessary flexibility
entailed the complication of one extra possible drive and folder dependency. 25.92
- better service detecting switch setting changes at startup 25.73
- Show report bugfix – (print preview like feature) find next on tab 25.63
- Locus
- Equine notation – ABCDE ... Z alleles generalizes the "Polymarker" type 25.83
- improve locus name guessing (e.g. D2/D21 type distinctions) 25.83
- locus ordering
- alphabetize on End or on Alt-a 25.67
- minor bugfix 25.67
- timing stamps show 1/10th of a second 25.67
- experimental, work-in-progress: Auto-pilot feature runs DNA•VIEW without user
interaction 25.62
- allow DNA•VIEW to operate from directory level below where DNACFG.SF resides 25.67
- allow accession numbers with 0 sequence part, such as 2003-00000. 25.62
- Ctrl-c accepted as an alternative way to revert to top-level menu 25.51
- Top level menu remembers previous commands 25.51
- Echo user responses in bright yellow letters 25.56
- SNP's implemented in various ways 25.49
- import or type in alleles C, G, A, T 25.49
- Screen looks for SNP matches 25.49
- Import/Export options accept loci in
a single column (instead of necessarily column pairs) 25.49
- Case (Paternity/Crime/Automatic Kinship)
- (experimental) allow half-integer unknown contributors (as approximation to dropped-out alleles) 28.64
- better treatment of default # of unknowns 28.64
- display raw sizes to see all genetic data for the case (same as display raw sizes
under immigration/kinship) 28.45
- Check genotype consistency; big red warning box if inconsistent. 27.32
- select case Clean up "popular case" number list of deleted cases 27.43
- display prominent warning message for 8 seconds when there are contradictory DNA genotypes. 27.31
- Crime Case, Stain Calculator
- New (blindly) calculate all loci takes the place of user
stepping through the loci. 27.31
- Display warning when hypothesized # of unknowns varies across loci. 27.31
- Don't force user to choose database each time. 27.31
- Allow entry of an expression (i.e.
1/220 for an allele frequency). 27.31
- Skip over Amelogenin or other non-autosomal loci. 27.31
- Case Options option to omit "role names" for kinship cases, hence when the role
words like "Sibling" are misleading for a case, you can omit them. 27.26
- compute one locus replace and enhances "example – your risk!" 27.24
- select case
- bugfix – remove defunct case numbers (in case of system reset) when user runs Update 27.11
- The Popular Case feature (PgUp) includes cases mentioned
on the recently examined membrane, or whatever membrane you may choose (via PgUp again). 25.91
- Paternity Case
- Include mutation possibilities if effect > x% – new option
to control mutation calculation 28.01
- Show results always to 3 significant figures, consistent with Immigration/Kinship 27.49
- If it looks like there may be an "oddball" mutation, prompt user for the relevant parameter. 27.47
- Check for mother-child sample switch; warn ostentatiously if it seems likely. 27.48
- Paternity Case, calculate report highlights loci for which there was a
mutation calculation (with µ) and/or a motherless calculation (with
-m)
and gives on-screen a count of each. 27.14
- bugfix –
revert to the method of version 25.92 of frequency calculation so that an
immigration/kinship calculation of a paternity case can agree exactly with the
Paternity case calculate report calculation. (There was a slight
discrepancy in recent versions because the two situations "tossed" different numbers of
alleles temporarily into the database for frequency calculation.) 27.06
- batch select allow selecting in various convenient ways 25.102
- calculate report bugfix – VALUE ERROR 25.94
- calculate report bugfix – posting to ASCII file
no longer omits Amelogenin 25.92
- when outputting results to a numbered file whose (DOS)
name would otherwise be too long, truncate the leading digits of the case number.
I.e. the case file for case 200412345 might be R0412345.txt. 25.91
- If the file is not empty, offer to clear it before posting the new results. 25.91
- bugfix – correct role descriptions for fatherless output 25.91
- cleanup "Consensus" line when negligible variation 25.87
- Automatic Kinship Case improve navigation; avoid add role
default suggestion 25.91
- list cases
- display includes names, races, amount of data, comments 25.77
- bugfix – allow empty list 25.78
- Edit case comment – add a comment to a case 25.73
- show role letters in "restrict" screen 25.73
- bugfix – disallow empty race list 25.73
- bugfix – don't ask race when deleting case 25.73
- insists on a legitimate race list (not just -) 25.56
- calculate report
- bugfix – prior probability formatting on short report (Kinship similar) 25.87
- bugfix – allele display on "SQL LIMS" paternity report 25.77
- bugfix – recognize "toss in" parameter in
Gjertson calculation 25.56
- confidence interval estimates removed. (They are
pointless anyway, and it's nearly
impossible to account for the interacting complications of minimum
frequencies, mutation estimates, and null allele computations.) 25.51
- STR model of mutation implemented (if
elected by options switches & parameter settings) 25.49
- bugfix – VALUE ERROR invoking
stain calculator 25.56
- (Case) Options new options
- computer-readable report version, written to file.
Available both for paternity and for kinship 25.56
- If the standard filename includes a number such as C:\reports\kin987.txt
(but not C:\reports\kin987x.txt), substitute the number of the current case
– truncated if necessary to conform to the DOS 8+3 file naming rule. 25.62
- "prompt for null" causes calculate report
to ask user for null frequency when homozygote encountered 25.56
- "Ultra-conservative multiple race calculation"
is formerly standard behavior – smallest PI locus-by-locus.
If value "no", then use smallest PI overall, but use the same race
for each locus. 25.56
- bugfix – can't create cases manually in 25.43 unless
Options Name tag style:
is NAME. 25.46
- Immigration/kinship
- Bayes Calculator – new name, formerly Posterior probability 28.46
- Kinship log report documents databases used. 28.46
- Bad bone analysis:
Dropout [NOT] allowed (FOR ROLES __) toggle
to assume dropout for some samples 28.42
- Show pairwise relationships evaluates the following pairwise relationships among
every pair of people in the case: 28.24
- identity / identical twin
- parent-child
- siblingship
- double first cousin
- half sibling (avuncular, grandparental same thing)
- cousin
- Estimate likely relationships
- shows which relation 28.31
- include Y-haplotype 27.51
- Chart of posterior probabilities – evaluates posterior probabiities for a range
of prior probabilities, in particular the "requisite prior" corresponding to the specified
posterior threshold if any. 28.24
- Posterior probabilities interactive chart computes posteriors
from priors, even when multiple (>2) hypotheses are computed. 27.31, 28.24
- X-linked markers (work in progress – for now girl can't be homozygous at all loci) 27.14
- enhanced better to integrate Y-haplotype information 27.49
- Simulate, Print summary – Include case number and personnel. 27.47
- Estimate relationship includes Y-haplotype 27.51
- Allow summary even when no autosomal data (to allow incorporating Y-data) 27.49
- Symbolic genotype chart includes both autosomal and Y loci 27.49
- Chart of posterior probabilities cleaner 27.49
- Y-haplotype summary compares Y-haplotypes in the case and computes matching odds. 27.47
- Show Y-haplotype in colored letter display 27.51
- Y-haplotype matching odds 27.42
- posterior probability chart per various priors 27.42
- Calculate ... includes a mutation indication even when >2 hypotheses
27.26
- Calculate one locus – only show genotypes of
people involved in the scenario for editing 27.25
- "parsing" options Calculate one locus, showing parsing and
Parsing info: SHOWN:
- allow changing any genotype interactively.
Useful for comparison computations to analyze mutation. 27.23
- much clearer & more helpful debugging display 27.23
- (& Kinship) Type in scenario
- Shortcut keys include copy-and-paste; F1
for keystroke help (left, right-click to copy; ctrl-v to paste) 28.35, 28.42
- allow more attractive alternative statement separators to %: 27.47
| symbol | name | method to type |
|---|
| ♦ | diamond
| Alt ~ (note: regardless of key caps, that's Alt with the upper-leftmost key) |
| ¤ | starburst | Alt shift 8 |
| ∩ | cap | Alt c |
- multiple hypotheses [Kinship etc] Case. 27.24 & prev
- When >2 hypotheses, display the LR matrix comparing all possibilities. 27.23
- compares more than two hypotheses simulataneously.
Use the verbose syntax method and prefix the second
alternate hypothesis with two /'s, etc. 27.15
Example:
C:M+F ; primary – F is the father
/ C: M+Bro ; alternate – F is the uncle
/ Bro,F:?+?
// C:M+? ; second alternate – F is unrelated
- restore the Amelogenin display 25.96
- improve "needless loci" option so that needless loci are not displayed 25.96
- improve locus coloring in symbolic genotype display 25.94
- allow empty pedigree 25.94
- Type in scenario –
- input has a memory; PgUp/PgDn
(or Ctrl-Up/Dwn)
to scroll to a previous input scenario. 27.23
- first character typed clears the type-in area; on-screen instructions explain.
(First move with an arrow to avoid this behavior.) 27.16
- cleaner input screen;
allow longer scenarios. (To get extra room for a very long scenario, leave the
type-in screen then re-enter; you'll have three new blank lines at the bottom.)
25.93
- preserve the setting for Prior Probability across sessions 25.91, 25.93
- show progress & time 25.92
- simplify report (always include "details" instead of asking) 25.92
- allow lower-case letters to begin a name in the automatic version of Kinship –
hence
C:m+F is ok (but m does not mean M). 25.91
- prominently display settings of the important switches/toggles 25.91
- allow arithmetic expression (e.g. 123/301) when manually specifying
allele frequencies 25.91
- Racial estimate compares racial origins for all profiles in the case 25.85
- cosmetic change 27.21
- select candidate races per Racial distance;
more general combinations allowed 25.93
- easier – no need for user to modify Case Options 25.93
- Immigration show & print genotype table options 25.76
- New input notation – prefix alternative scenario lines with / 25.67
- Speedups – cousin problems and redundant siblings for example 25.67
- Allele painting – more informative 25.67
- clarify locus name display 25.92-3
- Logical symbolic allele names: pr
means that the alleles are 2 steps apart, etc 25.67
- ct etc. for SNP's 25.67
- SNPs correctly colored 25.73
- add menu item to change database default selections 25.58
- Improve menu appearance & reword 25.56
- Needless loci option to clean
up display by eliding irrelevant loci 25.56
- Kinship simulation predicts whether a given kinship
problem will be solveable if genetic information becomes available. 25.28
- Browse implements a friendly way to return to previous simulations 28.56
- Export all nnn LR's and distribution graph creates
file from which Excel can make a beautiful graph 28.55
- prompts for multiplex instead of aborting if no databases for specified multiplex 27.04
- new options allows simulating completion of partial profiles
(e.g. 13-locus simulation optionally completes 9-locus profiles,
in addition to 13-locus profiles for as yet untyped
people) 25.102
- ask for total simulation count (not incremental) 25.99
- allow simulation prior probability; show average posterier in summary 25.99
- track multiple simulations better 25.99
- Show loci of a multiplex when selecting a multiplex 25.96
- Show the assumed hypothesis prominently if not PRIMARY 25.96
- cosmetic: round more nicely 25.94
- While simulating, keep cumulative results in view; show progress & timing. 25.93
- Allow setting PRIOR from the Simulate menu ~25.97
- If PRIOR>0 (to set it, Esc up one level to Immigration/Kinship),
then the average W-value (posterior probability) will be included in the simulation
report. 25.93
- Cleaner and more general multiplex specification 25.91
- prominently display settings of the important switches/toggles 25.91
- options to record the individual simulations to the long (log) report 25.91
- allow under "Autopilot" control 25.83
- better menu default suggestions 25.91
- much better menu, more options 25.67
- allow defining scenarios in Simulate 25.73
- considerably cleaned up, easier to use 25.56
- enhancements including allowing simulation of a single locus 25.49
- bugfixes –
- count number of alternate-hypothesis simulations correctly 27.02
- keep data straight when simulating alternative hypothesis 25.96
- ok to take a scenario from the pick list 25.93
- rare bug with a very large family reported results
like (0+0r)/0r due to incorrect rounding 25.91
Kinship Run test cases includes the
formerly problematic scenario as a test case. 25.91
- give graceful error warning on illegal kinship scenario 25.91
- fix VALUE ERROR 25.78
- sometime types got "stuck", same assignment occurred repetitively 25.56
- remove bias that favored selecting rare alleles for the simulation 25.39
- Improve screen display during simulation. 25.39
- sometimes died listing the assigned alleles. 25.35
- Database /
- Assign race to membrane accepts multiple membrane/worklists
(& option to exclude children) 28.42
- Rare alleles improved analysis, output 25.49
- Printout database – rewritten, improved 28.25
- Type in data to create a database, Edit database
- allow entering null (use n) 27.28
- help text sometimes obscured some information. 27.23
- better guessing at database size when you enter frequencies 27.17
- Prompts recall previous answers, more convenient when creating several databases.
27.02
- allow STR data. Long-standing bug didn't allow compilation of imported
data into a database 25.101
- Disaster analysis
- Membrane collapse
- bugfix – care against occasional LENGTH ERROR's 27.02
- recognize related profiles by similar core ID # and create a "virtual" profile
as a composite 25.96
- Screen disaster matches
- Screen summary report New computer-friendly summary of the Screening results 27.36
- DNA odds, DNA exclusion, Y-haplotype odds
- Y haplotype odds
- allows # instead of an allele number to select a random allele size.
(Alternatively type a race letter to select random allele from that race.) 28.46
- Fill in all loci by putting # for the locus. 28.28
- caters to partial profiles 27.42
- DNA exclusion odds
- Show exclusion probability as 0.99999999+, never as 1. 28.51
- Allow up to 18 loci 28.28
- option: Show raw size data, Add raw size data to report
auditing aid to see exact input data 27.33
- DNA odds, DNA exclusion remember previous case across sessions
27.26
- give visible feedback on CLEAR and ADD actions 27.18
- DNA odds permits a large number of loci (but
for this version only if you import the profile; can't type it
directly into DNA odds) 25.49
- DNA Profiles
- – retain race-theta correspondence accurately 27.02
- better sample name indication, includes case and name/comment 25.87
- collect profile from all relevant membranes 25.87
- bugfix – "minimum count" sensitive 25.87
-
- Worklist Sizes – simple and useful new command to
display/prepare a report showing the DNA profiles for a selected worklist/membrane 28.46
- Import/Export
- LIMS import allow browsing 27.24
- DNA•VIEW frequency database import Multiple file selection treats a response
of ~ alone the same as blank (ignores it). 27.24
- Import ASCII database histogram has
much friendlier dialogue; allows importing many loci from one file (parallel columns;
the column for allele sizes can be shared or can be different for different loci)
27.23
- Genotyper, Genemapper import etc
- New "Select on ..." option allows filtering the input file – accepting some samples and discarding others 28.49
- Use the treat-as-null/homozygous Options switch for importing
bones preparatory to kinship bone dropout analysis 28.42
- GeneMapper import can import peak height/area (not used yet though)28.42
- allow comma (,) or slash (/)
as an allele separator 28.16
- excellent import wizard 28.23, 28.31
- Allow importing of a case comment (an input column headed "Comment"). 27.48
- Recognize loci better, e.g. Penta's, Y-loci 27.47
- Reduce chance of user error by not putting a red bar on the list of membranes/worklists. 27.47
- allows (and ignores) leading garbage lines 27.35
- Avoid duplicating computer-assigned accession numbers even if the user accidentally errs 27.17
- When user creates a new membrane (=worklist), use it for import automatically 27.16
- If re-import against a membrane (=worklist) has conflicting roster information protect
the user by aborting the input 27.16
- less confusing display of import report 27.04
- GeneMapper import New option
allows importing the ABI GeneMapper file format of DNA
profiles. Similar to Genotyper import. 27.02
- shorten import dialogue when generating new cases 25.91
- – allow blank column heading 25.76
- Don't ask for "configuration"; no longer needed for allele data 25.73
- allow (& ignore) double quotes (") surrounding fields 25.67
- When approving the locus/column name interpretation,
Page Up selects the column with sample information 25.62
- allows single column/locus (space between for STRs, space not needed for
SNP or other 1-letter code alleles) 25.56
- allow (accession number)+(case)+(role) format for Sample Info (experimental) 25.56
- faster for large datasets 25.43
- bugfixes –
- avoid INDEX ERROR when adding data to a previous RFLP membrane 25.02
- recognize conflict on newly created numbers 25.67
- allow leading blank lines and column headings 25.67
- allow Esc on membrane select to abort 25.67
- allow duplicated
locus (two instances must non-consecutive) 25.58
- allow blank Amelogenin 25.56
- Import genotypes for database
- Import can treat illegal allele as homozygote.
See Options, Offladder allele policy 28.42
- improved report on check for duplicate profiles 28.41
- bugfixes –
- ellipsis shortcut notation failed if a very large number of loci 27.18
- when choosing a selection phrase don't ignore the last character 27.18
- check for duplicate sample numbers before other checks. 25.91
- better & clearer checking for duplicate and similar databases already present 25.67
- Allow allele notation such as <10 or >22
(which are recorded as 1 and 99 respectively) 25.67
- show allele names properly when comparing new database with old one to replace 25.39
- bugfixes –
- correctly report deleted sample number 27.02
- permit homozygous notation 25.83
- compares new versus old correctly when replacing an extant database 25.39
- WTC import cater to VIRT samples 25.67
- Independence of Loci, HW test
- Allow the allele of a homozygous genotypes to be written
either once (e.g. 10) or twice
(e.g. 10 10). 27.02
- bugfix – LENGTH error if select no columns, then select
no locus. 27.02
- bugfix – allow room to specify shuffling many many columns 25.58
- Kinship
- Maintenance
- network clean up Network Lock Test; show "waiting" box
whenever interlock engaged. 28.15
- locus list by chromosome
Alphabetize list within chromosome. Better user interaction. 27.04
- RecordSwitch allows disabling switch-checking 25.99
- cleanup & minor bugfixes 25.73
- Options
- Offladder allele policy 3rd option:
Ignore illegal notation (treat as null/homozygous). The other two are Discard
the locus (the new option just discards one allele), and Treat as rare. 28.42
- new Options – Decimal symbol symbol is . (period per U.S.)
or , (comma per European) 28.34
- Case numbering to allow long (9 digit) case numbers 28.15
- Locus name style like: D16S539
to present shorter version (omit chromosomal info, omit "STR") of locus name for
reports etc. 28.13
- convert accession codes
option for Katrina sample name scheme 27.31
- New option DNA•VIEW report includes: [workstation] [version] to enhance
the title line on each printed report 27.06
- DNA•VIEW report title line dialogue in a cleaner box 27.06
- Numlock toggle works (finally) 25.99 – usually the numlock key itself works anyway 27.01
- Paradox directory
Simpler designation of Paradox repository. The folder (usually
pdox,
occasionally D:\dnaview\pdox for suitable drive letter if you have a
networked system with customized workstations) needs only to be set here; no longer
need it also be set/changed in the Network tool. This simplification should make
for easier moving of DNA•VIEW to a different location, since there is at most
this one place within DNA•VIEW with a critical drive letter or full pathname. 25.93
- improve appearance 25.56
- select PCR separator (i.e. 9.3 or 9,3 etc.) 25.56
- character conversion allow nulls 25.56
- Keyboard allows about ten national keyboards 25.56
- bugfix – worklist spacing 25.67
- bugfix – default date 25.46
-
- Printout database (in Database) – optionally show allele probabilities (i.e. taking
into account minimum frequency and add-observed-allele-to-database parameters) and/or
sample frequency. 28.46
- Database similarity test menu simplified including new options Compute p-value for one locus and
Compute individual p-valueS for each locus to help explore data. 28.46
- Y Databases / 28.45
- Analyze Y database statistics under Y databases
– shows various statistics of the installed Y-haplotype databases 28.42
- include "Matching LR for new type" 28.52
- Install Y-haplotype databases from worklist
– converts one or several worklists to Y-haplotype database, adds them to the list of Y-haplotype databases 28.45
- Rename, reorder, delete Y-databases 28.45
- Y-haplotype matching odds – same as in menu 28.45
- Plot
- reduce number of prompts, more friendly: 28.43
- allele range indicated for the locus as well as for this database 28.43
- METAFIL option nicer 28.43
- Improve display of database names 28.15
- DISPLAY shows diagnostic error code when unable to display 27.11
- fails gracefully with a message when absence of graphics engine makes plotting impossible 27.08
- gives nice preview of STR database. 27.02
- Recognizes Esc to quit. 27.02
- Racial measurement tools
- Racial Distances – a new command under Research
Ideas uses whatever loci databases are available for to construct a "mileage
chart" of likelihood-ratio distances among any specified set of races. 25.91
- more flexible; recognizes a set of
databases as pertaining to the race for which they are defined as default
(which the user can easily specify even temporarily), in addition to the race
for which they are defined. 27.23
- Racial estimate compares racial origins for specified profile or case-worth 25.85
- optionally excludes racial mixtures from the report 27.08
- bugfixes –
- Case (Paternity, Kinship, Crime) bugfixes
- Paternity Case bugfixes
- Don't consider random man mutation 28.51
- test calculation examples – more accurate reference answers 28.51
- don't hold cases so greedily when user departs 28.47
- Paternity Case – bug in 28.43 prevented recomputing a case and
re-saving the "standard" report 28.44
- Don't allow calculate paternity unless proper roles are present 28.12
- Don't prompt for "oddball" if the case is obvious exclusion 27.49
- Don't prompt for "oddball" when someone has >2 alleles 27.49
- Don't prompt null frequency unless ASK/AUTO switch is ASK 27.49
- Mother-child sample switch check was wrong in 27.47. 27.48
- handle Amelogenin correctly in fatherless maternity case 27.32
- calculate report error when no loci and no mother 27.16
- mis-sorted the roles in some situation. 27.48
- When entering/editing a person, at the field, hit the DELete key
to remove the race (replaces the race letter with
-). 27.24
- Immigration/Kinship bugfixes
- Immigration/Kinship – posterior probability of 9.8/1 million is 0.001%, not 0.000 28.51
- Simulate bugfixes
- cleaner display of distribution deciles 28.67
- allow consecutive simulations with different multiplexes 28.42
- Simulate correctly when new allele included in profile 28.13 28.25
- skip Y-loci rather than VALUE ERROR 27.07
- allow unseen alleles among given profiles 27.14
- Don't allow "Pat" as mother in one hypothesis, father in another 28.14
- Type in scenariotyping a character after inserting a line doesn't clear the
window 27.28
- Kinship, Immigration/Kinship editing frequencies rarely
crashed DNA•VIEW 27.27
- Simulate failed if case included an allele not listed in the database 27.44
- avoid INDEX ERROR if illegal polymarker type
- Case ... more careful display of 99.999...% and similar 27.31
- skip Y-haplotype data 25.92
- Immigration/Kinship skip Amelogenin correctly (27.49 error) 27.53
- repair calculation error of ver 27.26 27.28
- Kinship Run test cases; check program restore cleaner display
27.29
- Print genotypes include size chart when printing 27.07
- frequency calculation
gives error indication if illegal genotype (like 3 alleles) 27.04
- sometimes the DNA profiles shown in the report file
didn't match the heading roles (M, C, etc.) 27.02
- locus name coloring on the colored symbolic genotype
exhibit was sometimes missing when the exhibit was too close to the
bottom of the screen 27.02
- document the case on the (long) report 25.92
- DNA odds/exclusion/Y-haplotype odds bugfixes
- Y haplotype odds bugfixes
- "person" button works now 28.47
- # correctly creates a locus list 28.45
- "experimental calculation" 25.56
- respond correctly to menu choices 28.28
- DNA odds matching odds are 1e6, not 1/1e6 28.15
- DNA exclusion allow printing via Ctrl-enter 27.18
- DNA odds, DNA exclusion wrong frequency calculation if NML mode and window size=0 27.19
- DNA odds, DNA exclusion frequency calculation from wrong locus when changing alleles 27.19
- DNA odds fix INDEX ERROR 25.56
- Import/export bugfixes
- Import Ascii database cleanup wizard;
give error if missing allele designation 28.17
- allow GeneMapper files with no "height" column 28.04
- GeneMapper Import allows (and ignores properly) ID_LADDER 27.39
- Parse Probusqueda File (specific-user feature) accidently
assigned a victim role to a reference 27.21
- other bugfixes, unsorted
|
|
DNA•VIEW version 25.35
September 30, 2002 |
Features –
- bugfix – Stain Calculator (stand-alone version always failed)
- Case (paternity/crime/automatic kinship)
- Immigration – allow exiting even if there is no data.
- Export – put the loci in order
- Crime case stain calculator
display includes names
- Import/export Genotyper import –
allow blank column heading; better dialogue to interpret column headings.
- Y-haplotype odds includes experimental matching odds estimate
- "What subdirectory?" prompts allow navigation.
- bugfix – Maintenance Probe/locus –
document stutter correctly
|
DNA•VIEW version 25.31
August 4, 2002
| Features –
- Paternity Case/CrimeCase/Automatic Kinship improved
"restrict" option permits ignoring a whole locus or whole person with a keystroke.
- Exact Test – select loci by menu (just hit Enter with
an empty answer)
- Import/Export Genotyper database –
the check for duplicate & similar profiles is more informative
- WTC features –
- Disaster Analysis command Membrane Collapse has
more options; estimates error in collapsing partial profiles.
- Import/Export WTC Genotyper input
can accept Personal Effects along with Kin samples; stash both into cases.
- bugfix – Kinship Immigration
Estimate relationships says 500000, not 499999.99999
|
DNA•VIEW version 25.28
July 8, 2002
| Features –
- Automatic Kinship Immigration includes new
option to iterate across all races in the race list computing the LR
- Paternity/Crime/Kinship Case –
- New feature Case export creates an allele table
for transfer of case data.
- Menu option Name tag style: [NAME|DATE] gives
quick access to the same option in Options.
- You can edit the name/comment information associated with each person/role.
- Reindex tool nicer, easier to use.
- WTC features –
- New menu Disaster Analysis puts commands in one tent
- New Disaster Analysis command Membrane Collapse separates
a function that was formerly integrated with Screen,
and has several options as to collapsing heuristic.
- Screen – allow arbitrary role for victim
- bugfix – when Kinship Immigration
LR=infinity, say so.
- bugfix – Import Genotyper import
error importing rosters.
|
DNA•VIEW upgrade to version 25.25
May 25, 2002
| Features –
- loci
- SNP's (designate alleles as G, A, C, T. Set "repeat amount" at least 1.)
- nicer dialogue when adding a new locus
- Mutation History allows ending case#
- bug fixes
- Import/Export Genotyper
lets user specify type of case (e.g. "Paternity") when import creates cases
- Mutation History sometime VALUE ERROR
- allow non-WTC users to avoid WTC accession # conversion
(check Options convert accession codes)
- stutter filter was missing from Import/Export
Genescan
- for resetting data on Windows 2000 etc. – RESET.BAT uses command line argument.
|
DNA•VIEW upgrade to version 25.18
April 1, 2002
| Features –
- bugfix – occasional "internal error 229" since 25.09
- (Better) provision for resetting data – RESET.BAT prompts, gives choices
- WTC features –
- implements new sample naming scheme
- Various versions of a given DM# are identified. That is, BODE-DM01234 and DM01234 are
the same sample, and are converted to the same internal code (namely, 0100-01234).
|
DNA•VIEW version 25.15
March 20, 2002
| bugfix in Screen vs 25.14
cosmetic improvement of switch monitoring
|
DNA•VIEW version 25.14
March 2, 2002
| Features – prototype Y-haplotypes calculator.
Paternity case fix bug since 25.07 that didn't
bother to pass cases along to PATER (unless using password facility)
|
DNA•VIEW version 25.13
January 29, 2002
| - Options bugfix/improve OFFLADDER, NumLock, default date
- Screen (disaster matches) allow 'W' victims as an option
- Interface to ABI SQL LIMS system: Import
Import LIMS. Invoked automatically on startup.
|
DNA•VIEW version 25.11
January 11, 2002
| - Automatic Kinship Immigration/Kinship
Useful option Test All Relations makes a chart showing
plausible relationships among the people in the case.
- Allele Report lists rare alleles for specified databases
|
DNA•VIEW version 25.09
December 30, 2001
|
- Screen disaster matches permits adding
(and deleting) comments for added victims.
- Null alleles handling revised. They are now
included as part of each database. Use the letter N
to enter a null allele – e.g., when typing in a database.
- Import/Export Import LIMS.
|
DNA•VIEW version 25.08
December 13, 2001
|
- Automatic Kinship immigration/kinship
posterior probability computation, bugfix Xmas tree display.
|
| DNA•VIEW version 25.07 |
- Screen disaster matches automatically adds victims to cases
- Automatic Kinship, immigration/kinship
Christmas tree display of genotypic patterns
|
DNA•VIEW version 25.06
December 10, 2001
|
- Disaster Screening
- Screen disaster matches
- collapses PQ RS ... AB YY as equivalent to PQ RS ... AA YZ (former version
allowed allele dropout only in the less specific profile)
- user may specify odds threshold for collapsing (was fixed as 1E11) and for
deficient odds list (was 1E11)
|
DNA•VIEW version 25.05
December 8, 2001
|
- Disaster Screening features:
- Import, Wistort format
accepts allele/record data, interprets WTC sample id's, builds
cases in DNA•VIEW corresponding to family references
- Import, Queen's Air
accepts Genotype data for Queen's crash, builds records as previous
- Automatic Kinship (in the
menu) allows an extended set of roles, named for various
relationships.
- Option, Name tag style
to show Name (rather than date) in case displays
- Screen Disaster matches (in the
menu) compares two worklists (membranes) of DNA profiles,
documentation
- collapses redundant profiles,
- lists deficient profiles,
- compares lists for likely relationships, searching
particularly for pairs of family references that
simultaneously match a victim sample
(see Powerpoint).
- optionally sorts the list of potential associations
(candidate matches)
- in order of promise,
- families with identified victims last.
- can usefully be used in reverse (sort by victim) or
for victim vs. victim (find relationship among the
victims)
- Shows names (where available from Sample Info) in the report
- Import, Genotyper
creates cases
- immigration
- makes a computation (not accurate, but a start) for mutation
- displays more of the genotypic patterns, including Amelogenin
- included (DOS) program reset.exe re-initializes all datasets
- bugfix – better network sharing protocol if Windows 2000
- clearer colors for "nametag" display in Case
- The Delete key on the membrane list pops up a dialogue box
that permit deleting various parts of the information
|
DNA•VIEW version 24.04
October 30, 2001
|
- "Home" key when presented with locus list pops up multiplex list for specifying locus ordering
- bugfix – better installation prompts if Windows 2000
- bugfix – HW exact test allow many many loci
- bugfix – Import/Export, Add Genotype Database allow many many loci
|
DNA•VIEW version 24.02
Aug 9, 2001
|
- Database, Analyze database statistics
computes "typical PI" (only for STR's or other discrete systems though)
- bugfix – HW exact test died with error message in previous version
|
DNA•VIEW version 24
July 23, 2001
|
- Stain Calculator – easier & more general specification of combination
of samples to analyze; help to unify hypotheses across all loci
Reverse the notation: H1 is prosecution hypothesis; H0 is defense
- Import/Export, Import Ascii database checks for
??s and duplicate or similar profiles.
- Membrane bugfix – allow # in comment
- Database similarity test bugfix – accept only loci for which db's exist
- Paternity case – Document the null frequency when relevant
- Import/Export, Create phenotype list sorts the loci
|
DNA•VIEW version 23.25
June 24, 2001
|
- Database Type in / Edit database and
Import/Export Import Ascii database
Allow frequency entries; convert them intelligently and interactively to counts
- Import/Export Add Genotype Database
Improve user prompt. Allow multiple column-pair specification for simultaneous import of loci.
- Minimum frequency option (See Options Case Options)
|
DNA•VIEW version 23.19
May 5, 2001
|
- Stain Calculator / Crime Case fewer keystrokes to iterate
through loci when recomputing
- bug fix – DNA Odds show race letter correctly after
retrieving "person"
- HW check, Independence check Allow importing file with
up to 52 columns (up to about 25 loci).
|
DNA•VIEW version 23.15
March 28, 2001
|
- revolutionary menu selection method: user's type-in phrase(s) can match anywhere
in the menu items, not just at the beginning
- Stain Calculator / Crime Case refine database choosing
- Reprint Pop up option dialogue box when printer="none"
- DNA Odds refine linkage check; discard linked locus only
when LR>1; Allow 18 loci. Enhanced modalities "uncle" "child" etc.
Work-in-progress: Weighted matching chance accounting for relatives.
- Database similarity test Statistical test to analyze
if several databases for the same locus and race seem similar. Allows simultaneous
assessment across several loci.
- Import/Export Genotyper / Hitachi
Allow multiple (more than two) columns for a locus. bugfix: Recognize "Penta D" etc.
- bug fix – Options Language
- bug fix – PI document database used
|
DNA•VIEW version 23.13
February 1, 2001
|
- Stain Calculator / Crime Case conveniently change databases
to sequentially try various ones. Remember the database under
File or fetch
- Import/Export, Import RFLP sizes
– (Read alternative)
- Cleaner Database Update, with timer
- bugfix – every 100th membrane harmless error report
- Paternity Case. Make the Gjertson calculation sensitive to
the "minimum count" and "count this allele" options. Make
it work reasonably with PCR data (and sigma=0)
|
DNA•VIEW version 23.09
December 24, 2000
|
- Cleaner Paternity case output omits Pi(Gj) if 0/0, omits "delta=0 sigma=0" line.
- bugfix – Allow inputting X and Y symbols for Amelogenin
- bugfix – Default race shown as letter if name not defined.
- bugfix – Clean up computer-assigned workstation name when workstation signed off
- Import Genotypes for database imports iteratively
- Import Create pheotype list
understands allele numbers when typing in extra phenotypes to search for
- bugfix – Mass database selection allows context with
trailing space if you follow with
&, e.g.
Indian & to search for lines with
Indian (i.e. & helps to quote the spaces)
- Cleaner Postscript support (Just use
install to create a new DNAVIEW.BAT file.)
|
DNA•VIEW version 23.05
November 2, 2000
|
- Selection of default database (per race) allows many-at-a-time.
- avoid workstation name accumulating higher and higher number-suffix
- bugfix – 23.03 may divide by 0 if a kinship case has both STR and RFLP data
- bugfix – fix error if Paternity case reconstruction
has a person who appears in a mixture lane with a person not in the case
|
DNA•VIEW version 23.03
October 5, 2000
|
- Import/Export BioImage – imports molecular weight
data from BioImage "export format" Ascii files. Includes Roster import.
- can use the DEL key to delete or rename a membrane from any membrane list.
- bugfix – maybe avoid the occasional crash after on-screen report display
|
DNA•VIEW version 23.02
October 2, 2000
|
- Read, Type in a Read, PCR Read –
cleaner method to present the "Lane report": It is added to the action menu.
Format is revised – ? or ! error code is 1st column for easy searching,
case number next with role codes. Says "mixture" rather than the two person
numbers for a mixture lane. Consecutive blank rows are omitted.
|
DNA•VIEW version 23.01
October 2, 2000
|
- Membrane – Allow membrane with no ladders (useful for import or
Type in a read)
- Options, Numlock –
set the cursor pad status from DNA•VIEW
- Race selection with one keystroke instead of two
- Paternity case, select case – echo case number
after using T etc. shortcut key
- bugfix – fix Paternity case format when mixed lane partly not this case
- Crime case – mixture calculation uses case race by default
- Plot – improve prompting for more plots
- bugfix – Don't include the mixed lane when Paternity case
computes "consensus".
- Update – When membrane table needs repair (because of file corruption),
rebuild it from newest to oldest so that a quick partial rebuild may be useful in
emergency.
New design of membrane table smaller, simple, less prone to corruption.
|
DNA•VIEW version 22.43
August 31, 2000
|
- Import – Genotyper allow case or sample id notation
- bugfix – fix formatting error when mixed lane only partly this case
- Import – enhance Add miscellaneous database
- bugfix – allow full 9-digit case number on membrane search by case
- bugfix – batch select in Paternity case
- bugfix – show null frequency correctly in DNA Exclusion
- bugfix – Paternity case rare ("unexpected") error when both STR & RFLP
- bugfix – transfer to PATER correctly when multiple tested women
- Plot improve "more plots" behavior
|
DNA•VIEW version 22.38
July 2000
|
- Code illegal allele as ? on display
- Mutation history experimental command reviews likely mutation cases
- new error code in Paternity case analysis
- Hitachi allele import (similar to Genotyper)
- Improved formatting of Kinship summary
- fix Genotyper import bug from 22.37
|
DNA•VIEW version 22.36
11May2000.
|
- Genotyper import, including import of the roster
- Type in a read continue looping after abort
- Paternity case check for illegal allele
- small bug fixes and minor cosmetic changes
|
DNA•VIEW version 22.34
25-Apr-2000 17:17 922k
|
- Cleaner "switch to PATER" command
- "Toss allele to database" tosses homozygote twice for crime
|
DNA•VIEW version 22.37
26May2000
|
- improved format of Kinship summary
- bug in Genotyper import!
|
