User Tools
Differences
This shows you the differences between two versions of the page.
| — |
changelog [2016/04/13 18:02] (current) |
||
|---|---|---|---|
| Line 1: | Line 1: | ||
| + | ===== Version History ===== | ||
| + | ==== 1.1.0 ==== | ||
| + | === Major new features === | ||
| + | * Reimplemented ''gdata'' infrastructure. **All users should update to this version because it is no longer compatible with previous gdata format**. The data release have also been updated. | ||
| + | * More association tests included: a partial list of [[https://github.com/zhanxw/rvtests|''rvtests'']] and a ''QuickRegression'' routine. | ||
| + | * Development moved to github.com to take advantage of its "issue" tracker system for interaction with users. | ||
| + | |||
| + | <box 80% round blue|**__Note__**> | ||
| + | Binary releases of ''SEQPower'' is no longer provided. Instead we release Docker images that supports all platforms where the Docker program is available. | ||
| + | </box> | ||
| + | ==== 1.0.1 ==== | ||
| + | Fix a critical regression bug that makes ''%%--%%proportion_detrimental'' crippled under default setting of ''%%--%%def_disruptive'' | ||
| + | |||
| + | <box 80% round blue|**__Note__**> | ||
| + | ''SEQPower'' does not provide "lite" version now -- ''spower simulate'' will be available by default. | ||
| + | </box> | ||
| + | ==== 1.0.0 ==== | ||
| + | === Major new features === | ||
| + | * Update default parameters to implement the European demographic model recently published [Gazave et al (2013)] for ''spower simulate'' | ||
| + | * Add ''%%--%%replicate -1'' option to allow for calculating average power/sample size estimates over the entire input data file | ||
| + | * Add ''%%--%%missing_unlisted'' option to include a list of variants that mimics the exome chip design | ||
| + | |||
| + | === Minor new features === | ||
| + | * Implement the truncated selection coefficient distribution (Kyrukov et al 2009) model. See updated ''spower simulate -h'' | ||
| + | * Color optimization for plots | ||
| + | |||
| + | ==== 1.0rc1 ==== | ||
| + | === Major new features === | ||
| + | * Command interface change, with improved naming convention for phenotype models | ||
| + | * Significant improvement on storage data format for haplotype pools | ||
| + | * Add ''spower simulate'' command. Now SEQPower has two versions: "Lite" (without this command) and "Full" (with this command). | ||
| + | * Add ''spower execute %%--%%plot'' command | ||
| + | * ''spower show'' is now compatible with SEQPower database input file | ||
| + | |||
| + | === Minor new features === | ||
| + | * Improved format for ''spower show'' output result | ||
| + | * Change output for ''GroupWrite'' to haplotypes; the minor allele count genotype output is still available with an additional switch ''%%--%%recode'' on | ||
| + | * Add ''%%--%%limit'' switch to restrict calculation to specified number of association units | ||
| + | * Add more simulated data set. Users need to completely update all haplotype pools data as the binary data format with release 1.0 beta are no longer supported | ||
| + | * Improved installation package for MacOSX | ||
| + | |||
| + | === Maintenance === | ||
| + | Various minor bug fixes | ||
| + | |||
| + | ==== 1.0beta ==== | ||
| + | First public release of SEQPower | ||
