swat
Link to section 'Introduction' of 'swat' Introduction
swat is a program for searching one or more DNA or protein query sequences, or a query profile, against a sequence database, using an efficient implementation of the Smith-Waterman or Needleman-Wunsch algorithms with linear (affine) gap penalties.
For more information, please check its home page: http://www.phrap.org/phredphrapconsed.html#block_phrap.
Link to section 'Versions' of 'swat' Versions
- 1.090518
Link to section 'Commands' of 'swat' Commands
- swat
Link to section 'Module' of 'swat' Module
You can load the modules by:
module load biocontainers
module load swat
Link to section 'Example job' of 'swat' Example job
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 swat on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=swat
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers swat