/[genomes]/quickload/C_elegans_Feb_2013/HEADER.md
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Contents of /quickload/C_elegans_Feb_2013/HEADER.md

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Revision 89 - (show annotations)
Thu Jan 17 17:56:19 2019 UTC (3 years, 3 months ago) by aloraine
File size: 1172 byte(s)
Add C. elegans Feb 2013 (WBcel235/ce11) genome assembly and gene models
1 <html>
2 <body>
3 <h1>C. elegans Feb 2013 (WBcel235/ce11) 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 C_elegans_Feb_2013.2bit 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 C_elegans_Feb_2013.2bit 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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