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Created with Raphaël 2.2.09Nov727Oct262524191613121120Sep191815148654131Aug302328Jul26242120191830Jun29222120191513982131May2924231918169428Apr2724191024Mar2322151392122Dec9123Nov181420Oct18121116Sep15149626Aug244128Jul8765124Jun151432130May2625201917131211109428Apr2012864124Mar2117161582129Feb26252423854129Jan2726158765418Dec1611982112Nov963228Oct2322211918728Sep2221181716151187331Aug2524201930Jul2923211714133130Jun29242319161511109321May20191230Apr2928272316987131Mar2720181716131211109413Feb123228Jan272114619Dec181712118528Nov272624212014adjusted sessionInfo() output fileMerge remote-tracking branch 'origin/master'added output print of run configurations and sessionInfo()added support for chimpanzeev6v6removed duplicated helper functionsadjusted geom_text position of volcano plotsv5v5extend guess_mart to Chinese hamster (cchok1gshd_gene_ensembl)added DESeq2 option betaprior with default = TRUE; corrected volcano plot labelling; removed default of geneInfo optionuse tag for diffex_commons.R sourcingv4v4removed unused commentsoptimized thread optionsMerge branch 'master' of git.mpi-cbg.de:bioinfo/ngs_toolsremoved jitteringMerge remote-tracking branch 'origin/master'added bedtools2-2.25 and reset of joblist task name before running dge_bigwigremoved jl backward compatibility wrappersadded chimp genomefixed typoadded git to docker base imageproject -> PRJ_NAMEmore robust PATH preparationadded option to give own geneInfo fileadded diffex_commonsadded path to bowtie-1.1.2; corrected "runThreadN 5"v3v3updated numbering, removed commentuse internal cp_utils with tagv2v2added cp_utils.Radded option to check R & python versionv1v1diabled printing of failing pathway renderingsadded workaround for invalid pathway idssimplified level assignmentupdated datautils to v1.44added featureCountsfixed common bin pathadded moods and custom java to setupremoved error message (missing pathways) as it interfered with knitterremoved `/` when part of the contrast label; adjusted error message for missing pathway datachanged holger to brandl in furiosa pathsadded auto-discovery branch for BIOINFO_BIN_BASE on falcon1started impl of cp_enrichment for yeast