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 observed/expected interaction matrix.
Test data: chr_intra_matrix.txt, chr_intra_matrix_bed.txt, 1.
Download link of test file: https://github.com/yangxy2/3Dgenome-file/tree/main/web_test_file.
Input data description:
Intrachromosomal interaction matrix: No header; 3 columns, separated by tab; From left to right, each column represents bin1 id, bin2 id, interaction frequency;
Matrix bed: No header; 4 columns, separated by tab; From left to right, each column represents chromosome name, bin start coordinate, bin end coordinate, bin id;
Number of chromosomes: The number of chromosomes in the matrix file(integer).