gwas2crispr
GWAS-to-CRISPR Data Pipeline for High-Throughput SNP Target Extraction
Provides a reproducible pipeline to conduct genome‑wide association studies (GWAS) and extract single‑nucleotide polymorphisms (SNPs) for a human trait or disease. Given aggregated GWAS dataset(s) and a user‑defined significance threshold, the package retrieves significant SNPs from the GWAS Catalog and the Experimental Factor Ontology (EFO), annotates their gene context, and can write a harmonised metadata table in comma-separated values (CSV) format, genomic intervals in the Browser Extensible Data (BED) format, and sequences in the FASTA (text-based sequence) format with user-defined flanking regions for clustered regularly interspaced short palindromic repeats (CRISPR) guide design. For details on the resources and methods see: Buniello et al. (2019) <doi:10.1093/nar/gky1120>; Sollis et al. (2023) <doi:10.1093/nar/gkac1010>; Jinek et al. (2012) <doi:10.1126/science.1225829>; Malone et al. (2010) <doi:10.1093/bioinformatics/btq099>; Experimental Factor Ontology (EFO) <https://www.ebi.ac.uk/efo>.
Versions across snapshots
| Version | Repository | File | Size |
|---|---|---|---|
0.1.2 |
rolling source/ R- | gwas2crispr_0.1.2.tar.gz |
20.9 KiB |
0.1.2 |
rolling linux/jammy R-4.5 | gwas2crispr_0.1.2.tar.gz |
38.0 KiB |
0.1.2 |
rolling linux/noble R-4.5 | gwas2crispr_0.1.2.tar.gz |
38.0 KiB |
0.1.2 |
latest source/ R- | gwas2crispr_0.1.2.tar.gz |
20.9 KiB |
0.1.2 |
latest linux/jammy R-4.5 | gwas2crispr_0.1.2.tar.gz |
38.0 KiB |
0.1.2 |
latest linux/noble R-4.5 | gwas2crispr_0.1.2.tar.gz |
38.0 KiB |
0.1.2 |
2026-04-23 source/ R- | gwas2crispr_0.1.2.tar.gz |
20.9 KiB |
0.1.2 |
2026-04-09 windows/windows R-4.5 | gwas2crispr_0.1.2.zip |
43.5 KiB |