check_gtf_input: Check and format the GTF input

In numbat: Haplotype-Aware CNV Analysis from scRNA-Seq

Check and format the GTF input

Description

This function validates the input GTF object, ensuring it is either a properly structured 'GRanges' or 'data.frame' that matches the expected Numbat GTF format. If a 'GRanges' is provided, it will be processed into a standard GTF-like 'data.frame' with gene coordinates and annotations.

Usage

check_gtf_input(gtf_obj, reference_gtf_cols = colnames(gtf_hg38))

Arguments

gtf_obj	GRanges or data.frame; input GTF object
reference_gtf_cols	character vector; expected column names (default from numbat::gtf_hg38)

Value

data.frame Formatted GTF object with required structure

numbat documentation built on Nov. 5, 2025, 5:31 p.m.