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Created with Raphaël 2.2.030Jan292827262322212019161514131210986517Dec1611985432128Nov272524222120191817141211108765432131Oct3029282725242322212017Merge branch 'develop' of git.lumc.nl:biopet/biopet into feature-igvtoolsSupport multiple output for igvtoolsMerge branch 'develop' into feature-gentrapMerge branch 'feature-fastq_sync' into 'develop'Add notes on input - output compressionUse AsyncFastqWriter instead of BasicFastqWriterAdd output annotation to sync tool stats outputRemove unused importUse sync tool and update its wrapperRemove old sync script and its wrapperAdded BamToChromSizesMerge branch 'develop' into feature-bamToBigWigAdded changes to idea depended filesInit framework for BamToBigWigMerge branch 'develop' into feature-fastq_syncFixes in summary, newline and introduce RPKMonly option to generate rpkm files..Merge branch 'feature-wigToBigWig' into 'develop'Add version commentbug fix in Carp pipelineAdded dendrogram plotChange color scale to fix clustering and added a dendrogram plotAdded changes for new sampling handlingMerge branch 'develop' into feature-Chipcapbug fixes in carp pipelinebug fixes for macs2 wrapperFix argsFix scala docs format errorAdded wigToBigWig extensionAdded allele overlap heatmapMerge branch 'develop' into feature-vcf_statsExtracted IGVTools from YamsvpUpdate on the pipeline, streamline and minimize the required arguments taken from the commandlineMerge branch 'feature-improve_multisample' into 'develop'fix scala docs (again)Fix scala docsRenaming valuesRemove unused codeRenaming valuesChange color on heatmapSwitch Gatk pipeline and Basty to new multisample classes