Public Repository

Last pushed: 2 years ago
Short Description
Step 3 for the hictool (GITAR) pipeline (Depricated - use duplexa/hictool-hdf52matrix)
Full Description

Arguments : chromosome, binsize
It assumes input hdf5 files are in /data/ and the output files go to the same directory. So, mount the data directory to /data/.
hg19 assumed.

Run example (for chromosome 22 and 50kb bin):
docker run -v /home/ec2-user/data:/data/:rw duplexa/hictool-bam2matrix2 22 50000

Docker Pull Command