v0.2

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🎉 GRmap v0.2

This is the stable release of GRmap, a Snakemake pipeline for matching sequencing reads to a reference genome and annotating them with gene, TSS, CpG, and repeat features.

Features

• Modular pipeline using Snakemake
• Read mapping via match.pl
• Genomic annotation via annotate.pl
• Supports compressed FASTA, GFF, BED, and TXT inputs
• Fully configurable via config.yaml
• Clean and reproducible output structure

📚 Documentation

Refer to the docs for setup, usage, and structure.

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Full Changelog: v0.1...v0.2

v0.1

Release Notes

• Initial release of the Read Pattern Tool.
• Key Features:
  • Supports .fasta.gz compressed file handling for efficient memory usage.
  • Matches Illumina read markers (lengths: 40, 60, 80, 100) to the partial hg38 genome.
  • Offers query size selection (1,000 to 1,000,000).
  • Outputs matched markers to MatchedMarkers.txt.
  • Provides benchmarking options for runtime and memory usage.
• Error handling included for invalid file paths and inputs.
• Optimized for non-zero match counting to save time and resources.