JBrowse 2 genome hubs

Main genome browsers

Name Scientific name Organism Description JBrowse UCSC
hg19 (info) Homo sapiens Human Feb. 2009 (GRCh37/hg19) JBrowse UCSC
hg38 (info) Homo sapiens Human Dec. 2013 (GRCh38/hg38) JBrowse UCSC
hs1 (info) Homo sapiens Human Jan. 2022 (T2T CHM13v2.0/hs1) JBrowse UCSC
mm10 (info) Mus musculus Mouse Dec. 2011 (GRCm38/mm10) JBrowse UCSC
mm39 (info) Mus musculus Mouse Jun. 2020 (GRCm39/mm39) JBrowse UCSC

Note that some tracks that are available at UCSC are not yet available here, see here for more info.

GenArk browsers

Recently updated list

We also created JBrowse 2 instances based on the UCSC GenArk browser resources, which is an effort to bulk create genome browsers for numerous plant, animal, and microbial species. See https://hgdownload.soe.ucsc.edu/hubs/ for more info.

Species categories:

hub gateway description
primates NCBI primate genomes
mammals NCBI mammal genomes
birds NCBI bird genomes
fish NCBI fish genomes
vertebrate NCBI vertebrate genomes
invertebrate NCBI invertebrate genomes
fungi NCBI fungi genomes
plants NCBI plant genomes
viral NCBI viral genomes
bacteria NCBI bacteria genomes
archaea NCBI archaea genomes

Project collections

hub gateway description
VGP Vertebrate Genome Project
CCGP The California Conservation Genomics Project
HPRC Human Pangenome Reference Consortium
BRC BRC Analytics - Bioinformatics Research Center (VEuPathDB and others)
globalReference Global Human Reference genomes, January 2020
legacy NCBI genomes legacy/superseded by newer versions