goatools.grouper.sorter_gos module¶

Sorts GO IDs or user-provided sections containing GO IDs.

class goatools.grouper.sorter_gos.SorterGoIds(grprobj, sortby=None, hdrgo_sortby=None)[source]¶

Bases: object

Sorts grouped GO IDs.

Get a 2-D sorted list:

goids = ["GO:HHHHHH0", [
            "GO:UUUUU00",
            ...
            "GO:UUUUU0N"],
        ["GO:HHHHHH1", [
            "GO:UUUUU10",
            ...
            "GO:UUUUU1N"], ...

Get a flat sorted list of GO IDs:

goids = ["GO:HHHHHH0",
         "GO:UUUUU00",
         ...
         "GO:UUUUU0N",
         "GO:HHHHHH1",
         "GO:UUUUU10",
         ...
         "GO:UUUUU1N" ...

sortby(ntd)[source]¶: Return function for sorting.

get_nts_sorted(hdrgo_prt, hdrgos, hdrgo_sort)[source]¶: Return a flat list of grouped and sorted GO terms.

get_sorted_hdrgo2usrgos(hdrgos, flat_list=None, hdrgo_prt=True, hdrgo_sort=True)[source]¶: Return GO IDs sorting using go2nt’s namedtuple.