Signalp6
Introduction
SignalP predicts the presence and location of signal peptide cleavage sites in amino acid sequences from different organisms: Gram-positive prokaryotes, Gram-negative prokaryotes, and eukaryotes.
For more information, please check:
Versions
6.0-fast
6.0-slow
Commands
signalp6
Example job for fast mode
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 signalp6 on our clusters:
#!/bin/bash
#SBATCH -p PartitionName # batch, gpu, preempt, mpi or your group's own partition
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH -c 8
#SBATCH --job-name=signalp6
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module purge
module load signalp6/XXXX ### you can run *module avail signalp6* to check all available versions
signalp6 --write_procs 8 --fastafile proteins_clean.fasta \
--organism euk --output_dir output_fast \
--format txt --mode fast
Example job for slow mode
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 signalp6 on our clusters:
#!/bin/bash
#SBATCH -p PartitionName # batch, gpu, preempt, mpi or your group's own partition
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH -c 8
#SBATCH --job-name=signalp6
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module purge
module load signalp6/XXXX ### you can run *module avail signalp6* to check all available versions
signalp6 --write_procs 8 --fastafile proteins_clean.fasta \
--organism euk --output_dir output_slow \
--format txt --mode slow
signalp6 --write_procs 8 --fastafile proteins_clean.fasta \
--organism euk --output_dir output_slow-sequential \
--format txt --mode slow-sequential