Custom pipeline for sgRNA alignment and analysis, developed for cross-disciplinary bioinformatics support at CR2TI, UMR 1064, Nantes Université.
Genome version and annotation :
- sgRNA sequence alignment
- On-target / off-target analysis
- Results visualisation
Genome version and annotation :
- sgRNA table used for guide design sgRNA
- control sgRNA table
- sample annotation for MLE or RRA models
- Human orthologs from Rabbit Genome
- MaGeck RRA and MLE output in Input folder
- R / Bash
- Alignment conda environment => sgRNAEnv.yml
- R libraries used are shown in all R files
- sgRNA Alignment pipeline
- R scripts for R_Utility
- R scripts for PCA
- R scripts for Heatmap
- R scripts for VolcanoPlot
- R scripts for RankPlot
- R scripts for MLE
- R scripts for GoEnrichment
Valentin FRANCOIS--CAMPION — GitHub