- Changed and corrected presentation of Mantel p-values
3.05 - 01 March 2007
- Code optimized
- Changes to output of user-entered genetic distances
- Cosmetic changes to presentation of Mantel test p-values
3.04 - 22 February 2007
- Fixed bug for large number of populations
- Added genetic distances output to Genetic distances/similarities
3.03 - 31 January 2007
- Fixed bug in results summary displaying DISTANCE MATRIX
- Fixed bug in DNA analysis to accept genetic distances of zero
- Fixed Rousset's distance functionality for DNA data sets
- Added Slatkin's similarity measure to DNA data sets
- Added radio button for FST/PhiST, Rousset's, or Slatkin's option
- Output of Rousset's or Slatkin's matrix in genetic distances output
- Cosmetic changes made to front page
- Front page now has three options for data input, genetic distance/similarities,
non-DNA Raw Data (diploid genotypes, codominant markers), and DNA Raw data (DNA sequences)
- Sample data provided for each of the three input data types
- Set default analysis to genetic similarity (M)
- Changed order of parameter selection in increase clarity
- Changed the graph's y-axis title based on genetic similarity or distance selection
- Added genetic distances to non-DNA Raw Data output
- Added title based on genetic similarity or distances selection to results summary
- Changed clarity in p-value title for results summary output
- Changed analysis title based on genetic similarity or distance selection
3.02 - 16 November 2006
- Fixed bug in memory allocation for sequence storage.
- Added debug statements in log file for dna data genetic distance calculation.
3.01 - 09 November 2006
- Corrected bug in Mantel test output.
3.0 - 1 November 2006
- Improved clarity and precision on Mantel test p-values.
- Added front page to navigate to codominant marker/genetic distances or DNA data page.
- Incorporated DNA data sets to code.
- New input page for DNA data sets.
- Revised error message to input population data parsing.
- Updated additional time estimates.
- Added start time to waiting page.
- Indicated unknown estimate time for those not known.
- Fixed log of zero or negative geographic distance to output error message.
- Changed all associated web pages to consistent font.
2.6 - 4 March 2006
- Added waiting for processing page upon submit.
- Moved VERSION define to globals.c definition for easy version number change in codes.
- Generated error page for unfound GENETIC_DISTANCE, GEOGRAPHIC_DISTANCE, and/or GENETIC_GEOGRAPHIC_MATRIX keywords.
- Generated error page for unfound POPULATIONS keyword.
- Allow case insensitive keyword comparison.
- Added start and total processing time on top left of results page.
- Added start and total processing time on bottom of results summary
- Fixed usage of negative genetic distances for first analysis.
- Cosmetic changes made to front page.
- Javascript to check number entered in for number of limits and ranges.
- Added data limits page.
- Fixed throwing out of negative genetic distances.
- Added estimated request process times to front page.
- Added javascript to select radio buttons for file input or paste data input on click.
- Added javascript to disable "enter" key for form submission.
- Added javascript to disable negative genetic options when unchecked.
- Added additional error message for Rousset's distances when going back and resubmitting.
2.5 - 15 September 2005
- Moved HTML form parsing code to the cgic library.
- Added a utility to load old results from IBDWS.
- Created an admin-utility for web-based IBDWS management.
- Added output for the request identifier.
- Moved sorting from convential insertion sort to quicksort.
- Made optimizations that result in fewer buffer reallocations.
2.1 - 1 May 2005
- The line of zeroes required
for allelic data is no longer required.
- Made the input file parsing
more efficient and robust.
- Resolved a bug that was
preventing certain input files from processing.
- Made web service compilation
and installation easier via scripting.
- Created a script that
clears out the temporary files generated by IBDWS on scheduled intervals.
- Revamped the version
history page and made it XHTML compliant.
- NOTE: at this point in
development, a problem has been isolated with large matrix inputs. We are
currently working to resolve this problem.
2.0 Beta - 31 October 2004
- Postscript/JPEG plotting
functionality.
- Fixed calculations to
prevent undefined values for F-Statistics.
- Fixed some pointer logic
errors.
- Extended IBD to a web
based interface.
- Implemented a graphing
algorithm that rounds graphing increments to produce more elegant graphs.
- Formatted output data
into HTML tables.
- RMA Regression line is
plotted to all outputted graphs.
- Implemented a waiting
screen.
- Reformatted console output
to HTML.
- Added a date and time
stamp to output files.
- Ported the Apple source
code to Linux/gcc.
- Made the sample files
readily available.
- Created a source forge
account for IBDWS, located at http://sourceforge.net/projects/ibdws/
- File inputs can be done
through a form or through file uploads.
- Drastically increased
the maximum number of populations, loci, alleles, and population pairs.
1.52 - 18 March 2004
- (Raw data format) Summary
statistics for each locus may be saved to the outfile.
- Partial Mantel test results
now reported in outfile.
- Minor cosmetic changes
to outfile.
1.51 - 13 February 2004
- Residuals for RMA regression
of (Genetic Distance vs Geographic Distance) may now be saved to the outfile.
- Parameters in outfile
are now reported with 10 significant digits.
1.5 - 23 January 2004
- Added support for partial
Mantel tests (see manual).
- Compiled using newer
version of CodeWarrior (v.8). Possible increases in speed on some platforms,
although this has not been thoroughly tested.
- Fixed extra columns in
ouput file.
1.4 - 29 April 2003
- Support added for input
files in matrix format (see manual).
- The genetic distance
F/(1-F) is now calculated (Raw Data format).
- Fixed bug when entering
M value for F <= 0 (Raw Data format).
- Maximum alleles per locus
increased to 500.
1.3 - 17 December 2002
- A summary of the results
is saved in a tab-delimited text file.
- Confidence intervals
now estimated with greater precision.
- Bug fix for some potential
overflow problems.
- File names can now be
anything.
- If the file is not found,
IBD searches for the same file name with ".txt" appended.
1.2 - 21 May 2002
- Improved interface for
preferences; more options for handling genetic distances or similarities <=
0.
- RMA now presents more
types of analysis, with log- transformation of geographic and genetic data
separately and jointly.
- Fixed rounding error
affecting some RMA calculations for very small genetic distances.
- Updated manual.
1.13 - 14 May 2002
- Fixed calculation of
log(geographic distance).
- Fixed a bug that affected
jackknifing calculations for files with 15 or more populations.
- Minor improvements to
application speed.
- Minor changes to screen
output.
1.12 - 14 December 2001
- IBD now correctly handles
raw data sets that include sample sizes of 0 for some locus-population combinations.
- Minor change to randomization
methods.
- Minor cosmetic changes.
- Minor updates to manual.
- New icon.
1.11 - 10 July 2001
- Increased maximum # alleles
per locus to 40.
1.1 - 17 June 2001
- Extensive changes to
program, including addition of reduced Major axis regression and Mantel Tests.
See the IBD manual.
1.0 - 29 March 2000
