Releases: bodkan/admixr
admixr 0.9.1
admixr 0.9.0
- New prototype implementation of exhaustive search of qpAdm models through rotation of sources and outgroups (qpAdm_rotation()).
- New tutorial describing the qpAdm_rotation() procedure.
- Fixed broken regex parsing of qpWave log files in some cases.
- Added type checking to a couple of functions (not all wrappers type checked yet).
admixr 0.8.7
- qpAdm proportions table now shows p-values and SNP counts (both for overall analysis but also for the target sample).
admixr 0.8.6
- Satisfying further checks on various testing servers.
- Cleanup of tests and imports.
- Updated license.
- Prepared for the first CRAN submission.
v0.8.5
admixr 0.8.3
- Updated license.
admix 0.8.2
- Expanded some tests.
- Prepared for the first CRAN submission.
admixr 0.8.1
- Fixed a minor bug in single-source qpAdm analyses. The package now detects
this and correctly handles missing "subsets/patterns" information.
admixr 0.8.0
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New function loginfo() which operates on any output object from an admixr wrapper and shows the full log output (the “log file” in ADMIXTOOLS jargon) associated with the analysis. It also has options for saving the log file to a permanent location and to only show a log file for a target sample of interest (relevant for qpAdm analyses with multiple targets at once).
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admixr can now (hopefully) detect broken/truncated output files generated by ADMIXTOOLS whenever there is some fatal issue with an analysis. The package should now detect this and inform the user.
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Removed qpAdm argument details - the user will always want to see the full analysis summary so this option is redundant. It is still kept in qpWave - for now, until I figure out how useful the full output actually is. Given the implementation of loginfo() above, we might remove the argument from qpWave too at some point soon.
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The function download_data() fetches data from a more stable location.
admixr 0.7.1
- Parse admixture proportions from the "best coefficients" line of the qpAdm output file.