# lofreq_realign
Recipe source code: https://github.com/rworkflow/RcwlRecipes/blob/master/Rcwl/pl_lofreq_realign.R (opens new window)
# plot
# Inputs
| label | type | description | |
|---|---|---|---|
| ref | File | ||
| bam | File |
# Outputs
| label | type | description | |
|---|---|---|---|
| ibam | File |
# steps
| label | doc | |
|---|---|---|
| realign | ||
| sortBam | ||
| indelq | ||
| bamIdx |
← lofreq indel lumpy →