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Annotation of /quickload/A_melanoleuca_Dec_2009/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: 1224 byte(s)
Remove broken link to UCSC downloads page (it moved)
1 aloraine 6 <html>
2     <body>
3     <h1>Ailuropoda melanoleuca (Dec 2009) giant panda (ailMel1/BGI-Shenzhen AilMel 1.0) 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 6 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 6 </p>
18     <p>
19 aloraine 80 The file named A_melanoleuca_Dec_2009.2bit 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 6 <a href="genome.txt">genome.txt</a> lists sequences and their sizes and was made from
22     A_melanoleuca_Dec_2009.2bit 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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