goatools.grouper.sorter_nts module

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

class goatools.grouper.sorter_nts.SorterNts(sortgos, section_sortby=None)

Bases: object

Handles GO IDs in user-created sections.

• Get a 2-D list of sections:

  sections = [
      ['Immune', [
           "GO:HHHHHH0", "GO:UUUUU00", ...  "GO:UUUUU0N", "GO:HHHHHH1", ...]],
      ['Neuro', [
           "GO:HHHHHH2", "GO:UUUUU20", ...  "GO:UUUUU2N", "GO:HHHHHH3", ...]],
  ]
  

Also contains function for various tasks on grouped GO IDs:

• Sort in various ways (sort by: p=value, depth, proximity to leaf-level, etc.):

  • Header GO ID groups

  • User GO IDs within a group

get_sorted_nts_keep_section(hdrgo_prt)

Get 2-D list: 1st level is sections and 2nd level is grouped and sorted namedtuples.

get_sorted_nts_omit_section(hdrgo_prt, hdrgo_sort)

Return a flat list of sections (wo/section names) with GO terms grouped and sorted.