Visualization mode

Hi-C data with the obtained optimal TAD set can be visualized using the function below:

python3 -m optimalTAD visualize [-h] [--samplename SAMPLENAME]
                                        [--region REGION] [--resolution RESOLUTION]
                                        [--chipseq CHIPSEQ] [--log2_chip]
                                        [--zscore_chip] [--rnaseq RNASEQ]

-h, --help

Help message

--samplename

Samplename of Hi-C data (for example, LacZ_1)

--region

Genome region to plot (for example, chr2L:1,000,000-5,000,000)

--resolution

Resolution of Hi-C matrix (=1)

--chipseq

Path to epigenetic data

--log2_chip

log2 transformation of epigenetic data

--zscore_chip

Z-score transformation of epigenetic data

--rnaseq

Add additional track to the plot