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Annotation of /quickload/D_rerio_Jul_2010/HEADER.md

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Revision 88 - (hide annotations)
Tue Jan 15 22:11:30 2019 UTC (4 years, 10 months ago) by aloraine
File size: 1179 byte(s)
Add description for new genome versions ce11, chlSab2, C. albicans
1 aloraine 26 <html>
2     <body>
3 aloraine 88 <h1>Danio rerio (Jul 2010) zebrafish (Zv9/danRer7) genome assembly</h1>
4 aloraine 26 <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 26 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 26 </p>
18     <p>
19 aloraine 80 The file named D_rerio_Jul_2010.2bit 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 26 <a href="genome.txt">genome.txt</a> lists sequences and their sizes and was made from
22     D_rerio_Jul_2010.2bit 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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