# VarScan2Somatic
Recipe source code: https://github.com/rworkflow/RcwlRecipes/blob/master/Rcwl/pl_VarScan2Somatic.R (opens new window)
# plot
# Inputs
| label | type | description | |
|---|---|---|---|
| tbam | File | ||
| nbam | File | ||
| ref | File | ||
| region | File |
# Outputs
| label | type | description | |
|---|---|---|---|
| sSnp | File | ||
| sIndel | File | ||
| sVcf | File |
# steps
| label | doc | |
|---|---|---|
| mpileupT | ||
| mpileupN | ||
| somatic | ||
| processSomatic | ||
| somaticFilter |