dropest
Link to section 'Introduction' of 'dropest' Introduction
Dropest is a pipeline for initial analysis of droplet-based single-cell RNA-seq data.
For more information, please check its website: https://biocontainers.pro/tools/dropest and its home page on Github.
Link to section 'Versions' of 'dropest' Versions
- 0.8.6
Link to section 'Commands' of 'dropest' Commands
- dropest
- droptag
- dropReport.Rsc
- R
- Rscript
Link to section 'Module' of 'dropest' Module
You can load the modules by:
module load biocontainers
module load dropest
Link to section 'Example job' of 'dropest' 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 Dropest on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=dropest
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers dropest
dropest -f -c 10x.xml -C 1200 neurons_900_possorted_genome_bam.bam