verkkofillet.pp.find_intra_telo

verkkofillet.pp.find_intra_telo#

verkkofillet.pp.find_intra_telo(obj, telo_file='internal_telomere/assembly_1/assembly.windows', out_prefix=None, telolen=0, loc_from_end=15000, teloPerct=0.5)[source]#

Find the internal telomeres in the assembly.

Parameters:

  • obj – The object containing the stats database.

  • telo_file – The path to the telomere file. Default is “internal_telomere/assembly_1/assembly.windows”.

  • out_prefix – The prefix for the output file. Default is None.

  • telolen – The minimum length of the telomere. Default is 0.

  • loc_from_end – The minimum distance from the end of the contig. Default is 15000.

  • teloPerct – The minimum telomere percentage. Default is 0.5.

Returns:

The DataFrame containing the contig, internal-left, internal-right, distal-left, distal-right, and problem columns.

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