Open daler opened 11 years ago
I prefer option four. This was part of the reasoning for using OrderedDicts in pbt. First, we get the chroms in the order we want them, and second, we could conceivably tag the default (autosomes and x,y) and optional chroms in pbt. This way, e HC grids could, by default, plot only the standard chroms, and optionally plot everything. The last option would be to have the user provide a list of chroms in the YAML config file.
OK, sounds good. I'll add the default info to pbt.
Currently if
chrom="genome"
is specified when creating a HilbertMatrix,pybedtools.chromsizes()
is used to get the chromosomes for the assembly, and all chromosomes are used.Some options: