SeqKit - a cross-platform and ultrafast toolkit for FASTA/Q file manipulation.
See versions of seqkit which are available:
$ module avail seqkit
Load one version into your environment and run it:
$ module load seqkit/0.11.0 $ seqkit
N.B.: Please use the
-j option to set the number of CPU threads used by seqkit to be the same as the number of CPUs requested in your SLURM SBATCH parameters.
Notes from the sysadmin during installation:
$ cd /tmp $ wget https://github.com/shenwei356/seqkit/releases/download/v0.11.0/seqkit_linux_amd64.tar.gz $ tar xf seqkit_linux_amd64.tar.gz $ sudo mkdir -p /export/apps/seqkit/0.11.0/bin $ sudo cp seqkit /export/apps/seqkit/0.11.0/bin