WGD gene pair methylation level TADs boundary methylation level TADs boundary gene density Gene compartments judgment OE matrix generation Chromosome interaction-distance WGD gene pair contact score Gene pair contact frequency Conservative TADs analysis
TIPS

Function: Calculate the methylation level of paralogous genes derived from WGD.
Test data: wgd_gene.txt, wgd_CG.txt, wgd_CHG.txt, wgd_CHH.txt.
Download link of test file: https://github.com/yangxy2/3Dgenome-file/tree/main/web_test_file.
Input data description:
WGD gene list: Paralogous genes derived from WGD; The first row is the header; 8 columns, separated by tab; From left to right, each column represents gene 1 name, gene 1 chromosome name, gene 1 start coordinate start, gene 1 end coordinate, gene 2 name, gene 2 chromosome name, gene 2 start coordinate, gene 2 end coordinate;
CG(/CHG/CHH) level: Methylation level data; The first row is the header, which is "Lachesis_group_ID Coordinate Value"; 3 columns, separated by tab; each column represents the chromosome number, the base position of methylation on the chromosome, and the methylation level.