ltr_finder
Link to section 'Introduction' of 'ltr_finder' Introduction
LTR_Finder is an efficient program for finding full-length LTR retrotranspsons in genome sequences.
Home page: https://github.com/xzhub/LTR_Finder
Link to section 'Versions' of 'ltr_finder' Versions
- 1.07
Link to section 'Commands' of 'ltr_finder' Commands
- ltr_finder
- check_result.pl
- down_tRNA.pl
- filter_rt.pl
- genome_plot.pl
- genome_plot2.pl
- genome_plot_svg.pl
Link to section 'Module' of 'ltr_finder' Module
You can load the modules by:
module load biocontainers
module load ltr_finder
Link to section 'Example job' of 'ltr_finder' 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 ltr_finder on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=ltr_finder
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers ltr_finder
ltr_finder 3ds_72.fa -P 3ds_72 -w2 > test/3ds_72_result.txt \
| genome_plot.pl test/