Actc

Introduction

Actc is used to align subreads to ccs reads.

For more information, please check:

Home page: https://github.com/PacificBiosciences/actc

Versions

• 0.2.0

Commands

• actc

Module

You can load the modules by:

module load biocontainers
module load actc

Example job

Warning

Using #!/bin/sh -l as shebang in the slurm job script will cause the failure of some biocontainer modules. Please use #!/bin/bash instead.

To run actc on our clusters:

#!/bin/bash
#SBATCH -A myallocation     # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=actc
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out

module --force purge
ml biocontainers actc

actc subreads.bam ccs.bam subreads_to_ccs.bam