Currently, hicstuff view allows to subset either an intra-matrix for a continuous region, or an inter-matrix between two discontinous regions.
@aurelepiazza suggested to add an option to subset all contacts (intra and inter) for a number of discontinuous regions in a whole map. For example:
hicstuff view -f frags.txt --multi-region 'chr1;chr3:1-100kb;chr8:100kb-400kb' mat.tsv
To obtain a map with all interactions between and within three regions on different chromossomes.
Currently,
hicstuff viewallows to subset either an intra-matrix for a continuous region, or an inter-matrix between two discontinous regions.@aurelepiazza suggested to add an option to subset all contacts (intra and inter) for a number of discontinuous regions in a whole map. For example:
hicstuff view -f frags.txt --multi-region 'chr1;chr3:1-100kb;chr8:100kb-400kb' mat.tsvTo obtain a map with all interactions between and within three regions on different chromossomes.