(Listed in alphabetical order)
| Author | ORCiD | Affiliation | Contribution |
|---|---|---|---|
| Karl Kornel | 0000-0001-5847-5330 | Stanford Research Computing Center | Contributed containerization |
| Alex Lancaster | 0000-0002-0002-9263 | Amber Biology LLC, Ronin Institute | Lead developer. Co-designer of Python framework: author of main engine, text file parser, Python extension module framework using SWIG, XML output and XSLT post-processing framework (to generate plain text and HTML output). |
| Steven J. Mack | 0000-0001-9820-9547 | University of California, San Francisco | Contributed bug reports, documentation, reviewed PRs. |
| Michael P. Mariani | 0000-0001-5852-0517 | Mariani Systems LLC and University of Vermont | Contributed bug reports, documentation, reviewed PRs. |
| Diogo Meyer | 0000-0002-7155-5674 | University of São Paulo | Reviewed and tested PyPop, contributed some statistical analysis code. |
| Mark P. Nelson | University of California, Berkeley | Co-designer of Python framework: implemented and maintained Python modules, particularly the module for Hardy-Weinberg analysis. Updated and maintained XSLT code. | |
| Richard M. Single | 0000-0001-6054-6505 | University of Vermont | Author of haplotype frequency and linkage disequilibrium
analysis module emhaplofreq. Contributed documentation and
testing/reviewing PRs. |
| Vanessa Sochat | 0000-0002-4387-3819 | Lawrence Livermore National Laboratory | Contributed to the Python 3 port. |
| Owen Solberg | 0000-0003-3060-9709 | Implemented filter modules, including conversion to allele name information to sequence data. | |
| Jurriaan H. Spaaks | 0000-0002-7064-4069 | Netherlands eScience Center | Contributed to Zenodo upload GitHub action |
| Glenys Thomson | 0000-0001-5235-4159 | University of California, Berkeley | Principal investigator |
| Yingssu Tsai | 0009-0006-0162-6066 | University of California, Berkeley | Implemented prototype of the allele names to sequence conversion filter module. |
| Gordon Webster | 0009-0009-2862-0467 | Amber Biology LLC | Contributed documentation and testing framework. |
Included with permission, or via GPL-compatible licenses.
gthwe- The Hardy-Weinberg "exact test" implementation is a modified version of Guo & Thompson's :cite:p:`guo_performing_1992` code. Dr. Sun-Wei Guo has kindly allowed us to release the code under the GNU General Public License. Original code available at https://sites.stat.washington.edu/thompson/Genepi/Hardy.shtml
slatkin-exact/monte-carlo.c- Montgomery Slatkin's implementation of a Monte Carlo approximation of the Ewens-Watterson exact test of neutrality :cite:p:`slatkin_exact_1994,slatkin_correction_1996`. Original code can be found at: http://ib.berkeley.edu/labs/slatkin/monty/Ewens_exact.program.
pval- The code in the '
pval' directory (with the exception of 'pval.c' the SWIG wrapper,'pval_wrap.i' and the Makefile) is part of the R project's 'nmath' numerical library http://www.r-project.org/ and is also licensed under the GNU General Public License (GPL). Minor modifications have been made to allow the module to build correctly.