Software: Usefulaf
Description
Usefulaf is an all-in-one Docker/Singularity image for single-cell processing with Alevin-fry(paper). It includes the all tools you need to turn your FASTQ files into a count matrix and then load it into your favorite analysis environment.
Available Versions
| Unspecified: | 0.9.2 |
|---|
Docker hub: https://hub.docker.com/r/combinelab/usefulaf
Home page: https://github.com/COMBINE-lab/usefulaf
Commands
- simpleaf
- R
- Rscript
- python
- python3
Module
You can load the modules by:
module load biocontainers
module load usefulaf
Example job
Using
#!/bin/sh -las shebang in the slurm job script will cause the failure of some biocontainer modules. Please use#!/bin/bashinstead.
To run usefulaf on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=usefulaf
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers usefulaf