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2015-03-19Adding the method and model parameters of R/qtl so that we can have the user ...DannyArends
2015-03-18Begun adding pair scan option, fixed bug if no closest markers foundzsloan
2015-03-18.cross files should not be in the repositoryzsloan
2015-03-18Fixed the borky genofilezsloan
2015-03-18Adding a fix to purge non-existing markers as covariates for the R/qtl analysiszsloan
2015-03-18Some more minor code/comment updates, making code a little shorterDannyArends
2015-03-18Cleaning up some of the code, updating output and adding/changing commentsDannyArends
2015-03-17Added r function for setting genotypes and generating the cross filezsloan
2015-03-17Moved print statement for non-humans only inside if statementzsloan
2015-03-17Merge branch 'master' of github.com:pjotrp/genenetwork2 into pjotr_testzsloan
2015-03-17Added permutations and cleaned code for rqtlzsloan
2015-03-17Merge branch 'master' of https://github.com/zsloan/genenetwork2 into pylmm0001Pjotr Prins
2015-03-17Converting an absolute path to a relative pathDannyArends
2015-03-17Added files for bootstrap icons and scatter-plot css fileZachary Sloan
2015-03-17Improved rqtl codeZachary Sloan
2015-03-17Moved scatter-plot to the right of options instead of belowZachary Sloan
2015-03-17Moved setting of geno variable into non-humanZachary Sloan
2015-03-14Threading: Sleep while waitingPjotr Prins
2015-03-14Allow the GC to do its jobPjotr Prins
2015-03-14Allow queue to be 2xCPU. Disable output filesPjotr Prins
2015-03-14Kinship multi-core: don't overload the queue with jobsPjotr Prins
2015-03-14Parallel K calculation is fixedPjotr Prins
2015-03-14Tests and indentationPjotr Prins
2015-03-14Conditional run of K calculationPjotr Prins
2015-03-14Adding testsPjotr Prins
2015-03-14Adding assertionsPjotr Prins
2015-03-14Allow empty K to be passed inPjotr Prins
2015-03-14Removing all references to is_testingPjotr Prins
2015-03-14Working on kinship: GN2 and simple matrix multiplicatino agreePjotr Prins
2015-03-14More MAFPjotr Prins
2015-03-14Replace missing values with MAFPjotr Prins
2015-03-14Testing kinship works on small GPjotr Prins
2015-03-14Merge branch 'zsloan' into devPjotr Prins
2015-03-14kinship: working on pylmmPjotr Prins
2015-03-13runlmm.py: remove extraneous conversionPjotr Prins
2015-03-13& RefactoringPjotr Prins
2015-03-13& runlmm.py: added assertions for default runPjotr Prins
2015-03-12lmm: use deep-copy to avoid side-effectsPjotr Prins
2015-03-12weird fix for lmm result - Python weirdnessPjotr Prins
2015-03-12Check GPjotr Prins
2015-03-12Debug infoPjotr Prins
2015-03-12process_plink.py: remove unused filePjotr Prins
2015-03-12Combined searches now work for most termsZachary Sloan
2015-03-12Just committing changes to search so I can pull to production branchZachary Sloan
2015-03-11runlmm.py: messagePjotr Prins
2015-03-11Adding multi-core kinship.pyPjotr Prins
2015-03-11Merged lmm branchPjotr Prins
2015-03-11lmm.py: change message on running from CLIPjotr Prins
2015-03-11& Added testing option, now the results matchPjotr Prins
2015-03-10NormalisationPjotr Prins
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