/[genomes]/quickload/H_sapiens_Feb_2009/HEADER.md
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Contents of /quickload/H_sapiens_Feb_2009/HEADER.md

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Revision 10 - (show annotations)
Wed Sep 26 22:23:41 2018 UTC (4 years ago) by aloraine
File size: 1280 byte(s)
Add Feb 2009 GRCh37/hg19 human genome assembly
1 <html>
2 <body>
3 <h1>Homo sapiens (Feb 2009) human being (GRCh37/hg19) genome assembly</h1>
4 <p>
5 The files listed below are formatted for visualization in the Integrated Genome
6 Browser, available from <a href="http://www.bioviz.org/igb">BioViz.org</a>.
7 </p>
8 <p>
9 Annotation (bed) and alignment (psl) files were downloaded from the UCSC Genome
10 Bioinformatics Table Browser. Each file is named for its corresponding table in the
11 UCSC Genome database. See the <a href="annots.xml">annots.xml</a> meta-data file in
12 this directory for details.
13 </p>
14 <p>
15 Files with extension .gz were compressed and indexed using bgzip and
16 tabix tools from <a href="http://samtools.sourceforge.net">samtools.sourceforge.net</a>.
17 </p>
18 <p>
19 The file named H_sapiens_Feb_2009.2bit contains sequence data and was downloaded from the UCSC Genome
20 Bioinformatics <a href="http://hgdownload-test.sdsc.edu/downloads.html">downloads
21 page</a>. To convert a .2bit to fasta, use twoBitToFa. The file
22 <a href="genome.txt">genome.txt</a> lists sequences and their sizes and was made from
23 H_sapiens_Feb_2009.2bit sequence file using twoBitInfo.
24 </p>
25 <p>
26 Both twoBitInfo and twoBitToFa are
27 available from <a href="http://hgdownload.cse.ucsc.edu/admin/exe/">http://hgdownload.cse.ucsc.edu/admin/exe/</a>.
28 </p>
29 </body>
30 </html>

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