# bwa_align
Recipe source code: https://github.com/rworkflow/RcwlRecipes/blob/master/Rcwl/pl_bwa_align.R (opens new window)
# plot
# Inputs
| label | type | description | |
|---|---|---|---|
| threads | int | ||
| RG | string | ||
| Ref | File | ||
| FQ1 | File | ||
| FQ2 | File? | ||
| outBam | string |
# Outputs
| label | type | description | |
|---|---|---|---|
| Bam | File | ||
| Idx | File |
# steps
| label | doc | |
|---|---|---|
| bwa | ||
| sam2bam | ||
| sortBam | ||
| idxBam |