hicInfo

An example output looks like this:

File:    hic_matrix.h5
WARNING: bin size is not homogeneous. Median 434
Size:    339,684
Sum: 243,779,407
Bin length:  434
Chromosomes: 2L, 2R, 3L, 3R, 4, X
Non-zero elements:   229,122,848
Minimum: 0
Maximum: 2116
NaN bins:    0

With HiCExplorer version 3 we support metadata in cooler files. The default behavior is to use the metadata:

$ hicInfo -m matrix.cool

To use the old method (and default for h5) please add the parameter:

$ hicInfo -m matrix.cool --no_metadata