genomic-coordinates

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产品介绍

Converts genomic intervals between coordinate conventions, normalises and compares variant representations, and detects assembly or contig-naming mismatches before they corrupt an analysis. Used whenever coordinates cross a format, tool, or assembly boundary - converting between BED, GFF/GTF, VCF, SAM/BAM, WIG, PSL, genePred, Picard interval_list, or region strings; reconciling 0-based half-open with 1-based inclusive; left-aligning or trimming indels; checking whether two variant records describe the same change; mapping genomic to transcript, CDS, or protein positions; auditing a BED/GTF/VCF for convention violations; or diagnosing GRCh37 vs hg19 vs GRCh38 vs T2T, chr-prefix, and liftover problems. Triggers include "off by one", "0-based", "1-based", "half-open", "coordinate system", "le

资源信息

许可证信息摘自官方源，可能过时或缺失。商用前请以原仓库的 LICENSE 文件为准。

功能说明

• •When to use
• •The rule
• •The two conversions
• •Which format is which
• •Variants are not intervals
• •Check the assembly before trusting a join
• •Audit a file against its own format
• •Transcript, CDS, and protein positions

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