omicverse.utils.gtf_to_pair_tsv

omicverse.utils.gtf_to_pair_tsv#

omicverse.utils.gtf_to_pair_tsv(gtf_path, output_path, gene_id_version=True)[源代码]#

Convert GTF file to gene ID mapping pairs TSV format.

参数:

  • gtf_path (str) – Path to input GTF file.

  • output_path (str) – Path for output TSV file.

  • gene_id_version (bool) – Whether to keep version numbers in gene IDs.

返回:

Number of unique genes written to output file.

返回类型:

int

示例

>>> import omicverse as ov
>>> # Convert GTF to mapping pairs
>>> gene_count = ov.utils.gtf_to_pair_tsv('genes.gtf', 'gene_pairs.tsv')
>>> # Use converted file for gene mapping
>>> data = ov.bulk.Matrix_ID_mapping(data, 'gene_pairs.tsv')
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