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Created with Raphaël 2.2.014Apr13121098764230Mar2726252423201918171615141312111098765432127Feb262423191817Merge branch 'path-style-fix' into 'develop'Merge branch 'patch-picard_summary' into 'develop'Fixed styleAdded tests for number convertingAdded a option to allow fallback on stringsAdding placeholder for RNA and Target statsMerge branch 'develop' into feature-reportRemove redundant SortSam jobsStyle fixMerge branch 'tsv_mod' into 'develop'Adding tests for VcfToTsvsample fields back like they wereMerge branch 'path-samplestsvtojson' into 'develop'Fix code styleFixed parsing of empty valuesAdded insertsize plotUpdates of Rscript and kopisuMerge branch 'fix-vcfwriters' into 'develop'adding separator arguments such that one can use a different separator than merely tab-delimitednaming conventions of default fieldsmore spellingconsistency of naming conventions (using VCF names of fields) and spellingMerge branch 'bowtie_extra_option' into 'develop'Added dummy sections for alignmentadd explanation of files to READMEAdding MergeAllelesTest and dependenciesadding checkAllelesVcfInBamTest stub and adding bgzipped and tabixed VCF files for tools that need indexed filesadding Test decoratorsVcfWithVcfTest stubtypos and grammarAnnotateVcfWithBedTest stub and improve argument descriptions in AnnotateVcfWithBedadding VcfFilterTest stubAdding front page for shivaAdded default sample and library liststesting different output modesAdding clipping and trimming statsExtended flexiprep summariesadded extra options to bowtiesetting reference dictionariesAdding plots to flexiprep
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