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Contents of /quickload/S_lycopersicum_Feb_2017/HEADER.md

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Revision 55 - (show annotations)
Thu Sep 27 16:03:02 2018 UTC (5 years, 9 months ago) by aloraine
File size: 1044 byte(s)
Add Solanum lycopersicum (tomato) May 2012/SL2.40 and Feb 2014/SL2.50 genome assemblies and annotations
1 <html>
2 <body>
3 <title>IGB QuickLoad site for the tomato Solanum lycopersicum</title>
4 <h1>Solanum lycopersicum, ITAG 3.0</h1>
5 <p>
6 The data files listed below are for visualization in the Integrated Genome
7 Browser, available from <a href="https://bioviz.org">BioViz.org</a>.
8 </p>
9 <p>
10 Sequence (.2bit) and gene models (.bed.gz) data files were re-formatted from files downloaded in August, 2017 from the <a href="http://solgenomics.net/organism/Solanum_lycopersicum/genome">SolGenomics Web site</a>. The sequence data were from the ITAG3.0 release of the tomato genome.
11 </p>
12 <p>
13 Files with extension .gz were compressed and indexed using bgzip and
14 tabix tools from Heng Li.
15 </p>
16 <p>
17 The .2bit file was converted from fasta to .2bit format using the faToTwoBit converter from Jim Kent. The genome.txt file was created using twoBitInfo, also from Jim Kent. Executables for these and other tools from Jim Kent are available from <a href="http://hgdownload.cse.ucsc.edu/admin/exe/">http://hgdownload.cse.ucsc.edu/admin/exe/</a>.
18 </p>
19 </body>
20 </html>

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