T2T-HG002Y

Code repository for the T2T-Y paper

This repository contains custom codes for data anslysis and visualization described in The complete sequence of a human Y chromosome.

External repositories

Assembly string graph construction and resoultion: https://github.com/snurk/sg_sandbox
1KGP and SGDP short-read variant calling: https://github.com/schatzlab/t2t-chm13-chry
Resources available for T2T-CHM13v2.0 as a reference: https://github.com/marbl/CHM13
Known issues in T2T-CHM13v2.0: https://github.com/marbl/CHM13-Issues

Name		Name	Last commit message	Last commit date
Latest commit History 44 Commits
accessibility_masks		accessibility_masks
alignments/lastz		alignments/lastz
amplicons_and_palindromes		amplicons_and_palindromes
epigenetics		epigenetics
igv_sessions		igv_sessions
liftover/gencodeV35		liftover/gencodeV35
refseq-contamination		refseq-contamination
variants		variants
README.md		README.md