cellranger-dna
Link to section 'Introduction' of 'cellranger-dna' Introduction
Cell Ranger DNA is a set of analysis pipelines that process Chromium single cell DNA sequencing output to align reads, identify copy number variation (CNV), and compare heterogeneity among cells.
Home page: https://support.10xgenomics.com/single-cell-dna/software/pipelines/latest/what-is-cell-ranger-dna
Link to section 'Versions' of 'cellranger-dna' Versions
- 1.1.0
Link to section 'Commands' of 'cellranger-dna' Commands
- cellranger-dna
Link to section 'Module' of 'cellranger-dna' Module
You can load the modules by:
module load biocontainers
module load cellranger-dna
Link to section 'Example job' of 'cellranger-dna' 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 cellranger-dna on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=cellranger-dna
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers cellranger-dna