quickload/T_rubripes_Oct_2011/HEADER.md

<html>
<body>
<h1>Takifugu rubripes (Oct 2011) Fugu (FUGU5/fr3) genome assembly</h1>
<p>
The files listed below are formatted for visualization in the Integrated Genome
Browser, available from <a href="https://bioviz.org">BioViz.org</a>.
</p>
<p>
Annotation (bed) and alignment (psl) files (if available) were downloaded from the UCSC Genome
Bioinformatics Table Browser. Each file is named for its corresponding table in the
UCSC Genome database. See the <a href="annots.xml">annots.xml</a> meta-data file in
this directory for details.
</p>
<p>
Files with extension .gz were compressed and indexed using bgzip and
tabix tools from <a href="https://www.htslib.org">htslib.org</a>.
</p>
<p>
The file named T_rubripes_Oct_2011.2bit contains sequence data and is from the UCSC Genome
Bioinformatics Web site. To convert a .2bit to fasta, use twoBitToFa. The file
<a href="genome.txt">genome.txt</a> lists sequences and their sizes and was made from 
T_rubripes_Oct_2011.2bit sequence file using twoBitInfo.
</p>
<p>
Both twoBitInfo and twoBitToFa are
available from <a href="http://hgdownload.cse.ucsc.edu/admin/exe/">http://hgdownload.cse.ucsc.edu/admin/exe/</a>.
</p>
</body>
</html>
1	<html>
2	<body>
3	<h1>Takifugu rubripes (Oct 2011) Fugu (FUGU5/fr3) 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 T_rubripes_Oct_2011.2bit 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	T_rubripes_Oct_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>