/[genomes]/quickload/A_melanoleuca_Dec_2009/HEADER.md
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Contents of /quickload/A_melanoleuca_Dec_2009/HEADER.md

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Revision 80 - (show annotations)
Sat Oct 27 01:44:05 2018 UTC (3 years, 11 months ago) by aloraine
File size: 1224 byte(s)
Remove broken link to UCSC downloads page (it moved)
1 <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 Annotation (bed) and alignment (psl) files (if available) 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="https://www.htslib.org">htslib.org</a>.
17 </p>
18 <p>
19 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 <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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