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biowdl/RNA-seq: Release 2.0.0

integration_instructionsResearch softwarekeyboard_double_arrow_right Software 10 Oct 2019Publisher:Zenodo
Authors: Vorderman, Ruben; DavyCats; Peter Van 'T Hof; Mei, Leon;

doi: 10.5281/zenodo.3560888 , 10.5281/zenodo.3713261 , 10.5281/zenodo.3975552 , 10.5281/zenodo.3479134

biowdl/RNA-seq: Release 2.0.0

Abstract

Replace the bam-to-gvcf and jointgenotyping pipelines with a gatk-variantcalling pipeline. This reduces complexity, allows for more efficient running of the pipeline and uses less filesystem storage. Update biowdl-input-converter tot the latest bugfix release (0.2.1) Update STAR version to 2.7.3a Simplify the pipeline so it uses much less subworkflows. This reduces the complexity for cromwell and reduces inefficiencies that are caused by waiting for the subworkflows to finish. It also makes configuring memory or cpu requirements for tasks in the workflow a lot easier, as these are not as deeply nested anymore.

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citations
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popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
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influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
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impulse
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