Biowulf High Performance Computing at the NIH
Accurity: a tool for inference of tumor purity, tumor cell ploidy and absolute allelic copy numbers from tumor-normal WGS data

Accurity infers tumor purity, tumor cell ploidy and absolute allelic copy numbers for somatic copy number alterations from tumor-normal WGS data by jointly modelling SCNAs and heterozygous germline single-nucleotide-variants. Accurity is highly accurate and robust, even in low-purity, high-ploidy and low-coverage set- tings in which several existing methods perform poorly.

References:

Documentation
Important Notes

Interactive job
Interactive jobs should be used for debugging, graphics, or applications that cannot be run as batch jobs.

Allocate an interactive session and load the program module:

[user@biowulf]$ sinteractive --mem=48g --cpus-per-task=8
[user@@cn3316 ~]$module load Accurity
Copy sample data to your current folder:
[user@@cn3316 ~]$cp $ACCURITY_DATA/* .
Enter the Accurity singularity container and run the program from within the container:
[user@@cn3316 ~]$acc 
Singularity Accurity.sqsh:>./main.py -c configure -t tumor.bam -n normal.bam -o sample_1_infer -d 1
Exit the container and end the interactive session:
Singularity Accurity.sqsh:>exit
[user@@cn3316 ~]$exit 
salloc.exe: Relinquishing job allocation 46116226
[user@biowulf ~]$