GUNC

GTDB R95 reference DB

Note: The following methods have source data that is not publicly available:

magna.gunc.gunc_max_css_scores_gtdb_r95()

Return the max clade separation score (CSS) for the R95 GTDB.

Return type

DataFrame

magna.gunc.gunc_contig_assignment_gtdb_r95()

Return the contig assignment for the R95 GTDB.

Return type

DataFrame

magna.gunc.gunc_all_levels_gtdb_r95()

Return GUNC output at all levels for the R95 GTDB.

Return type

DataFrame

Progenes reference DB

class magna.gunc.GuncMaxCssScores

Return the max clade separation score (CSS) for the R95 GTDB (progenes db).

df: pandas.core.frame.DataFrame

The dataframe.

class magna.gunc.GuncAllScores

Return GUNC output at all levels for the R95 GTDB (progenes db).

df: pandas.core.frame.DataFrame

The dataframe.

Helper functions

magna.gunc.read_contig_assignments_tsv(path)

Read from the GUNC contig_assignments output file.

Parameters

path (str) – The path to the DIAMOND output file.

Return type

DataFrame