verkkofillet.pp.searchSplit

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verkkofillet.pp.searchSplit#

verkkofillet.pp.searchSplit(obj, node_list_input, min_mapq=0, min_qlen=5000, min_mapStart=5000)[source]#

Searches for paths containing all specified nodes with a minimum mapping quality and length.

Parameters:

  • obj – The VerkkoFillet object containing the GAF data.

  • node_list_input – A list of node identifiers to search for.

  • min_mapq – The minimum mapping quality required for a path to be considered. Default is 0.

  • min_qlen – The minimum query length required for a path to be considered. Default is 5000.

  • min_mapStart – The minimum distance from the start of the query or path for a path to be considered. Default is 5000.

Returns:

A DataFrame containing the Qname and path_modi columns of paths that meet the criteria.

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