bustools
Link to section 'Introduction' of 'bustools' Introduction
Bustools is a program for manipulating BUS files for single cell RNA-Seq datasets.
For more information, please check its website: https://biocontainers.pro/tools/bustools and its home page on Github.
Link to section 'Versions' of 'bustools' Versions
- 0.41.0
Link to section 'Commands' of 'bustools' Commands
- bustools
Link to section 'Module' of 'bustools' Module
You can load the modules by:
module load biocontainers
module load bustools
Link to section 'Example job' of 'bustools' 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 Bustools on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=bustools
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers bustools
bustools capture -s -o cDNA_capture.bus -c cDNA_transcripts.to_capture.txt -e matrix.ec -t transcripts.txt output.correct.sort.bus
bustools count -o u -g cDNA_introns_t2g.txt -e matrix.ec -t transcripts.txt --genecounts cDNA_capture.bus