GFF3 Utilities

petlx.gff3.fromgff3(filename)[source]

Extract feature rows from a GFF3 file.

New in version 0.2.

petlx.gff3.gff3lookup(features, facet='seqid')[source]

Build a GFF3 feature lookup based on interval trees. See also petlx.interval.facetintervallookup().

New in version 0.2.

petlx.gff3.gff3join(table, features, seqid='seqid', start='start', end='end', proximity=1)[source]

Join with a table of GFF3 features. See also petlx.interval.intervaljoin().

New in version 0.2.

petlx.gff3.gff3leftjoin(table, features, seqid='seqid', start='start', end='end', proximity=1)[source]

Left join with a table of GFF3 features. See also petlx.interval.intervalleftjoin().

New in version 0.2.

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