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Created with Raphaël 2.2.023Nov28Aug16May13Dec12Nov27Sep26242029Aug151284NovMerge branch 'ticlla-master-patch-73216' into 'master'mastermasteradding alternative name of tool in the Readme.ticlla-master-p…ticlla-master-patch-73216update installation instructions to use intel"s python 3.6 distributionadjust code to use regular ndarray instead of matrix subclass which wil be deprecatedset interpolation to none in heatmap function for it to work with python 3.6put test requirementsremove/comment unused code statementsUpdate example on dataset from Georgia, compute ratios for pathways ranked in clustered MDR+ strains against non-clustered onesUpdate example on dataset from georgia, analysis per DR group includes only clustered strainsupdate example analysis on dataset from georgia. New updated list of SNPsupdate example analysis on the dataset from Georgia, updated list of SNPs correctly flags DR SNPsminor addition to instructions for installationissue with installation, get igraph from conda-forge repositoryminor additions to notebook on analysis of the retrospective MDR collection from Georgiarename method to plot scores of genes in significant, filter list of genes by coverage of raw score. Delete redundant methodupdate instractions for installationminor change to package requirementscorrect paths to GitLab repositoryadd description of methodology to notebook examples/pathwayRelevance_Gerogia_Transmission.ipynbincludes pathway relevance analysis per DR classpathway relevance analysis for samples in transmission clusters from Georgia(retrospective)add methods to extract top ranked genes in pathways covering a certain percentage of the total pathway raw scoreCorrect link to GitLab repocorrects link to GitLab repoPathways 0.1.0Initial skeleton