# rnaseq_Sf


Recipe source code: https://github.com/rworkflow/RcwlRecipes/blob/master/Rcwl/pl_rnaseq_Sf.R (opens new window)

# plot

## rnaseq_Sf

# Inputs

label type description
in_seqfiles File[]
in_prefix string
in_genomeDir Directory
in_GTFfile File
in_runThreadN int

# Outputs

label type description
out_fastqc File[]
out_BAM File
out_Log File
out_Count File
out_stat File
out_count File
out_distribution File
out_gCovP File
out_gCovT File

# steps

label doc
fastqc
STAR
sortBam
samtools_index
samtools_flagstat
featureCounts
gtfToGenePred
genePredToBed
r_distribution
gCoverage