# alignMerge
Recipe source code: https://github.com/rworkflow/RcwlRecipes/blob/master/Rcwl/pl_alignMerge.R (opens new window)
# plot
# Inputs
| label | type | description | |
|---|---|---|---|
| idBam | string | ||
| RG | string[] | ||
| threads | int | ||
| Ref | File | ||
| FQ1s | File[] | ||
| FQ2s | File[] |
# Outputs
| label | type | description | |
|---|---|---|---|
| oBam | File | ||
| matrix | File | ||
| Idx | File | ||
| stat | File |
# steps
| label | doc | |
|---|---|---|
| bwaAlign | ||
| mergeBamDup |