File Format Issue

[anupambh]

Hi,
I am highly interested to run TopDom for my research. Currently,I am using HiC Explorer to generate matrix file in h5 format.

I am also attaching the HiCexplorer command for your information:
The command to build HiC matrix:

/opt/miniconda2/bin/hicBuildMatrix --samFiles SRR400251_1.bam SRR400251_2.bam --binSize 10000 --restrictionSequence GATC --outBam SRR400251_chr10.bam --outFileName SRR400251_chr10 --threads 40 --inputBufferSize 400000 --region chr10

As per the manual of TopDom, The input matrix should be like :

CHR from.Coordinates to.coordinates Values Values...

How Would I convert the corrected matrix.h5 to your specified format?

Please suggest to me how to run the TopDom program.

Thanks in advance.
Regards;
Anupam

[HenrikBengtsson]

Not sure if "you" is a specific person or anyone in general. If the former, please see the pinned Issue #11