/[genomes]/quickload/M_musculus_Jun_2020/HEADER.md
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Contents of /quickload/M_musculus_Jun_2020/HEADER.md

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Revision 173 - (show annotations)
Thu Jun 29 17:46:56 2023 UTC (12 months, 2 weeks ago) by nfreese
File size: 1182 byte(s)
IGBF-3330: Add Mus musculus Jun 2020 genome;Jun 29, 2023
1 <html>
2 <body>
3 <h1>Mus musculus (Jun 2020) mouse (GRCm39/mm39) 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 M_musculus_Jun_2020.2bit 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 M_musculus_Dec_2011.2bit 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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