ALLCools.gtf
Contents
ALLCools.gtf¶
Submodules¶
Package Contents¶
- class Gtf(*args, **kwargs)¶
Bases:
gffutils.FeatureDB- get_gene_name(self, feature_id)¶
- _select_longest_id(self, id_list)¶
- get_gene_id_by_name(self, gene_name, select_longest=True)¶
- _convert_to_id(self, name)¶
- get_gene_feature(self, gene)¶
- get_gene_length(self, gene)¶
- get_gene_transcripts(self, gene, featuretype='transcript')¶
- get_gene_exons(self, gene, featuretype='exon')¶
- get_gene_tss(self, gene, transcript_featuretype='transcript')¶
- get_gene_promoter(self, gene, chrom_sizes_path, slop=500, transcript_featuretype='transcript')¶
- subset_db(self, output_path, genes=None, region_bed=None, span=500000, disable_infer_genes=True, disable_infer_transcripts=True)¶