Nextflow workflow for running GWA simulations

scripts, figures, and tables for C. briggsae PopGen and HDR manuscript

This is a repository for storing all scripts related to genome assembly, gene annotation, SV calling, GFF/FA file manipulation, functional enrichment analysis, gene set visualization, and syntelog decompression.

Andersen Lab Website

Scripts, data, figures, and tables for the C. elegans pangenome manuscript

Annotate VCF with snpeff and bcsq

This is a nextflow process that predicts gene models in Caenorhabditis de novo assembled genomes using BRAKER3. The input to this process is a TSV/TXT that contains three columns: species, strain, <pathToAssembly>. Column headers of "species", "strain", "asm_path" are required.