dandelion.Dandelion.update_germline

Dandelion.update_germline(corrected=None, germline=None, org='human')[source]

Update germline reference with corrected sequences and store in Dandelion object.

Parameters
  • self (Dandelion) – Dandelion object.

  • corrected (dict, str, optional) – dictionary of corrected germline sequences or file path to corrected germline sequences fasta file.

  • germline (str, optional) – path to germline database folder. Defaults to $GERMLINE environmental variable.

  • org (str) – organism of reference folder. Default is ‘human’.

Returns

Return type

updated germline reference diciontary in .germline slot.