/[genomes]/quickload/S_cerevisiae_Apr_2011/HEADER.md
ViewVC logotype

Annotation of /quickload/S_cerevisiae_Apr_2011/HEADER.md

Parent Directory Parent Directory | Revision Log Revision Log


Revision 79 - (hide annotations)
Sat Oct 27 01:34:05 2018 UTC (4 years, 1 month ago) by aloraine
File size: 1283 byte(s)
Fix typo; Suggest that psl files may not be available for every assembly
1 aloraine 54 <html>
2     <body>
3     <h1>S. cerevisiae strain S288C (Apr 2011) budding yeast (sacCer3) 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 54 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 54 </p>
18     <p>
19     The file named S_cerevisiae_Apr_2011.2bit contains sequence data and was downloaded from the UCSC Genome
20     Bioinformatics <a href="http://hgdownload-test.sdsc.edu/downloads.html">downloads
21     page</a>. To convert a .2bit to fasta, use twoBitToFa. The file
22     <a href="genome.txt">genome.txt</a> lists sequences and their sizes and was made from
23     S_cerevisiae_Apr_2011.2bit sequence file using twoBitInfo.
24     </p>
25     <p>
26     Both twoBitInfo and twoBitToFa are
27     available from <a href="http://hgdownload.cse.ucsc.edu/admin/exe/">http://hgdownload.cse.ucsc.edu/admin/exe/</a>.
28     </p>
29     </body>
30     </html>

  ViewVC Help
Powered by ViewVC 1.1.26