/[genomes]/quickload/H_sapiens_Dec_2013/HEADER.md
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Revision 79 - (hide annotations)
Sat Oct 27 01:34:05 2018 UTC (6 years, 1 month ago) by aloraine
File size: 1265 byte(s)
Fix typo; Suggest that psl files may not be available for every assembly
1 aloraine 9 <html>
2     <body>
3     <h1>Homo sapiens (Dec 2013) human being (GRCh38/hg38) genome assembly</h1>
4     <p>
5     The files listed below are formatted for visualization in the Integrated Genome
6 aloraine 15 Browser, available from <a href="https://bioviz.org">BioViz.org</a>.
7 aloraine 9 </p>
8     <p>
9 aloraine 79 Annotation (bed) and alignment (psl) files (if available) were downloaded from the UCSC Genome
10 aloraine 9 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 aloraine 79 tabix tools from <a href="https://www.htslib.org">htslib.org</a>.
17 aloraine 9 </p>
18     <p>
19     The file named H_sapiens_Dec_2013.2bit 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_Dec_2013.2bit 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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