Syri

Introduction

Syri compares alignments between two chromosome-level assemblies and identifies synteny and structural rearrangements.

For more information, please check:

Home page: https://github.com/schneebergerlab/syri

Versions

• 1.6

Commands

• syri

Module

You can load the modules by:

module load biocontainers
module load syri

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 syri on our clusters:

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

module --force purge
ml biocontainers syri

syri -c out.sam -r refgenome -q qrygenome -k -F S