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Created with Raphaël 2.2.028Jul26242120191830Jun29222120191513982131May2924231918169428Apr2724191024Mar2322151392122Dec9123Nov181420Oct18121116Sep15149626Aug244128Jul8765124Jun151432130May2625201917131211109428Apr2012864124Mar2117161582129Feb26252423854129Jan2726158765418Dec1611982112Nov963228Oct2322211918728Sep2221181716151187331Aug2524201930Jul2923211714133130Jun29242319161511109321May20191230Apr2928272316987131Mar2720181716131211109413Feb123228Jan272114619Dec181712118528Nov272624212014updated core_commons version.updated report of exported dataadded saving of ngs_tools' git commit versionMerge branch 'master' of git.mpi-cbg.de:bioinfo/ngs_toolsfixed count filteradjusted path to ngs_tools on clusterMerge branch 'master' of git.mpi-cbg.de:bioinfo/ngs_toolsadded outliers analysisupdated PCA with and without batch effect and updated to datautils/v1.42/R/ggplot_commons.Rstarted compilation of dup-radar reference data setsMerge remote-tracking branch 'origin/master'added dge_analyze_duplicates.shadded model dup-radar model parameter correlation plotfinished basic integration of dupradarcont duplicate analysisadded picard setuprun bc outside of STAR wrapperstarted duplicate analysisfixed typouse {} for variables where possiblemore robust environment check in dge templatemade deeptools path user independentfixed bioinfo paths in star templateadded r path; use PRJ_NAME everywhereadedd umask settings for dge templateadded check for samtoolsuse user dependent ngs-tools pathremoved user dependency from star templatechanged pca to color in all effecdtsadded cor matrix output to dge_bam_correlateupdated kallisto setupcosmetics; updated kotlin dependenciesrestored correct grouping in fpkm exportadded top20 matrix visualizationimproved tpm export. disabled ihw. more args checkingfixes #14continued docker base imageadded kscript to docker base imagestarted bioinfo base docker imageadded hsap ncbi build to igenome cache