Repository for analyzing Bge cell line variants
Switch branches/tags
Nothing to show
Clone or download
Fetching latest commit…
Cannot retrieve the latest commit at this time.
Type Name Latest commit message Commit time
Failed to load latest commit information.


Repository for analyzing variants between the Bge cell line and the B. glabrata reference genome

figures.R - includes all R commands in the analysis, preparation, and plotting for all figures - bash script for trimming paired-end Illumina reads from the Bge cell line and aligning these to the B. glabrata BB02 reference genome and measuring read depth coverage (RDC) across the genome - bash script for fetching paired-end Illumina reads from the B. glabrata BB02 referenence, re-aligning these to the assembled reference, and measuring RDC - bash scdript for running SnpEff analysis

variant_pipeline - bash script that inlcudes all commands and parameters for filterings variants