Common name: human
Taxonomic name: Homo sapiens, taxonomy ID: 9606
Sequencing/Assembly provider ID: The Genome Institute at Washington University School of Medicine
Assembly date: 24 Apr 2018
Assembly type: haploid
Assembly level: Contig
Biosample: SAMN05603847
Assembly accession ID: GCA_003070785.1
Assembly FTP location: GCA/003/070/785/GCA_003070785.1_HG02059_prelim_1.0
Total assembly nucleotides: 2,898,275,003
Assembly contig count: 3,180
N50 size: 25,293,151
Download files for this assembly hub:
To use the data from this assembly for a local hub instance at your
institution, download these data as indicated by these instructions.
See also: track hub help documentation.
To download this assembly data, use this rsync command:
rsync -a -P \ rsync://hgdownload.soe.ucsc.edu/hubs/globalReference/genomes/GCA_003070785.1_HG02059_prelim_1.0/ \ ./GCA_003070785.1_HG02059_prelim_1.0/ which creates the local directory: ./GCA_003070785.1_HG02059_prelim_1.0/or this wget command:
wget --timestamping -m -nH -x --cut-dirs=4 -e robots=off -np -k \ --reject "index.html*" -P "GCA_003070785.1_HG02059_prelim_1.0" \ https://hgdownload.soe.ucsc.edu/hubs/globalReference/genomes/GCA_003070785.1_HG02059_prelim_1.0/ which creates a local directory: ./GCA_003070785.1_HG02059_prelim_1.0/
hub myLocalHub shortLabel myLocalHub longLabel genome assembly GCA_003070785.1_HG02059_prelim_1.0 genomesFile GCA_003070785.1_HG02059_prelim_1.0.genomes.txt email yourEmail@yourdomain.edu descriptionUrl html/GCA_003070785.1_HG02059_prelim_1.0.description.htmlThe html/GCA_003070785.1_HG02059_prelim_1.0.description.html page is information for your users to describe this assembly. This WEB page with these instructions is an instance of html/GCA_003070785.1_HG02059_prelim_1.0.description.html file.
To operate a blat server on this assembly, in the directory where you have the GCA_003070785.1_HG02059_prelim_1.0.2bit file:
gfServer -log=GCA_003070785.1_HG02059_prelim_1.0.gfServer.trans.log -ipLog -canStop start \ yourserver.domain.edu 76543 -trans -mask GCA_003070785.1_HG02059_prelim_1.0.2bit & gfServer -log=GCA_003070785.1_HG02059_prelim_1.0.gfServer.log -ipLog -canStop start \ yourserver.domain.edu 76542 -stepSize=5 GCA_003070785.1_HG02059_prelim_1.0.2bit &Adjust the port numbers 76543 76542 and the yourserver.domain.edu for your local circumstances.
transBlat yourserver.domain.edu 76543 blat yourserver.domain.edu 76542See also: Blat for an Assembly Hub
Search the assembly: