Fasta3

Introduction

Fasta3 is a suite of programs for searching nucleotide or protein databases with a query sequence.

For more information, please check:
BioContainers: https://biocontainers.pro/tools/fasta3
Home page: https://github.com/wrpearson/fasta36

Versions

  • 36.3.8

Commands

  • fasta36

  • fastf36

  • fastm36

  • fasts36

  • fastx36

  • fasty36

  • ggsearch36

  • glsearch36

  • lalign36

  • ssearch36

  • tfastf36

  • tfastm36

  • tfasts36

  • tfastx36

  • tfasty36

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 fasta3 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 4
#SBATCH --mem=8G
#SBATCH --job-name=fasta3
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out

module purge
module load fasta3/XXXX ### you can run *module avail fasta3* to check all available versions

fasta36 input.fasta genome.fasta