Data analysis for Intestinal epigenotype of Atlantic salmon (Salmo salar) associates with tenacibaculosis and gut microbiota composition
Raw data deposited at SRA [link]
Script 1 QC, mapping and methylation calling of WGBS
Script 2 Methylkit: DMC DMRs
Script 3.1.1 tss from gff Script 3.1 methylation at tss Script 3.2 Clustering Script 3.3 PCA Script 3.4 vegan adonis permanova
Script 4 Manhattan plot
Script 5.1 Non overlapping features Script 5.2 Overlapping features Script 5.3 G-Test in R Script 5.4 Table 2 DMR-gene overlap
Script 5 Nanopore mapping etc. Script 6 Nanopore WGBS DMR comparison
Script 7 Summary figure