samtofastq

http://broadinstitute.github.io/picard/command-line-overview.html#SamToFastq

released

SamToFastq

processing pipelines

dynamic-perifusion-traits

https://github.com/dmcbffeng/DynamicPerifusionTraits

released

Dynamic Perifusion Traits Analysis Software

processing pipelines

star

https://github.com/alexdobin/STAR

released

STAR

processing pipelines

bamsync

https://github.com/broadinstitute/gtex-pipeline/tree/master/rnaseq/bamsync

released

bamsync

processing pipelines

rna-seqc

https://github.com/getzlab/rnaseqc

released

RNA-SeQC

processing pipelines

fastqc

https://www.bioinformatics.babraham.ac.uk/projects/download.html#fastqc

released

FastQC

processing pipelines

rsem

http://deweylab.github.io/RSEM/

released

RSEM

processing pipelines

picardmarkduplicates

https://broadinstitute.github.io/picard/command-line-overview.html#MarkDuplicates

released

Picard MarkDuplicates

processing pipelines