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biopet.biopet
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9bdd6fddda5c448639b553b3877b75b388987fd1
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12
biopet-bios
develop
epic-BIOPET-669
example-tarextract
fix-BIOPET-245
fix-BIOPET-593
fix-BIOPET-724
fix-BIOPET-728
fix-BIOPET-730
fix-BIOPET-782
gonl-GRCh38
master
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31 results
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Created with Raphaël 2.2.0
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wgs and rna metrics now got config value to enable/disable them
Fixed units tests
Output strandspecific wiggle/bigwig and TDF file
lowering the minimum_length to be kept
switch to core rscript extension
Added insert size estimation. Fix pindel2vcf dependency (depend on pindel, use beforegraph to set outputpath)
fix code warnings
Added meta exon counts to pipeline
Fixed scope
Merge remote-tracking branch 'remotes/origin/develop' into feature-measure_modules
Remove old unused code
Reformat
Added meta exons counts
Fixed gentrap tests
change typo in gentrap doc
Insertsize estimator
added fastq extension disclaimer to pipeline docs
reorder levels
Fix code warnings
Fixed createMetaExonCounts method
Combine overlapping genes in 1 thread
Merge branch 'feature-VarscanIntoShiva' into 'develop'
add SHARK config file location.
explain 4 level config values
Set more specific config for the pipeline. We want to keep the merged bam
Update some fields of the gentrap docs
Pindel update wrapper, specifing the output files (pindel generates more files)
Give mergeTables a extension
Added columnName to mergeTables
Code improvement
fixed strandProtocol
Some fixes with boolean in the pindelvcf wrapper
set defaults for mapping pipeline to skipmarkduplicates.
Merge remote-tracking branch 'remotes/origin/develop' into feature-measure_modules
Fixed single exon transcripts
Disabled countType by default
Fixed htseq-count
Implemented LazyCheck
Fixed config conversions
Fixed compile warning
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