/[genomes]/quickload/C_porcellus_Feb_2008/HEADER.md
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Revision 80 - (hide annotations)
Sat Oct 27 01:44:05 2018 UTC (3 years, 9 months ago) by aloraine
File size: 1188 byte(s)
Remove broken link to UCSC downloads page (it moved)
1 aloraine 20 <html>
2     <body>
3     <h1>Cavia porcellus (Feb 2008) guinea pig (cavPor3) genome assembly</h1>
4     <p>
5     The files listed below are formatted for visualization in the Integrated Genome
6     Browser, available from <a href="https://bioviz.org">BioViz.org</a>.
7     </p>
8     <p>
9 aloraine 79 Annotation (bed) and alignment (psl) files (if available) were downloaded from the UCSC Genome
10 aloraine 20 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 20 </p>
18     <p>
19 aloraine 80 The file named C_porcellus_Feb_2008.2bit contains sequence data and is from the UCSC Genome
20     Bioinformatics Web site. To convert a .2bit to fasta, use twoBitToFa. The file
21 aloraine 20 <a href="genome.txt">genome.txt</a> lists sequences and their sizes and was made from
22     C_porcellus_Feb_2008.2bit sequence file using twoBitInfo.
23     </p>
24     <p>
25     Both twoBitInfo and twoBitToFa are
26     available from <a href="http://hgdownload.cse.ucsc.edu/admin/exe/">http://hgdownload.cse.ucsc.edu/admin/exe/</a>.
27     </p>
28     </body>
29     </html>

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