Ltr_finder¶
Introduction¶
LTR_Finder is an efficient program for finding full-length LTR retrotranspsons in genome sequences.
For more information, please check:
Home page: https://github.com/xzhub/LTR_Finder
Versions¶
1.07
Commands¶
ltr_finder
check_result.pl
down_tRNA.pl
filter_rt.pl
genome_plot.pl
genome_plot2.pl
genome_plot_svg.pl
Module¶
You can load the modules by:
module load biocontainers
module load ltr_finder
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 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/