quickload/C_porcellus_Feb_2008/HEADER.md

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<h1>Cavia porcellus (Feb 2008) guinea pig (cavPor3) 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 C_porcellus_Feb_2008.2bit 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 
C_porcellus_Feb_2008.2bit 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>
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1	aloraine	20	<html>
2			<body>
3			<h1>Cavia porcellus (Feb 2008) guinea pig (cavPor3) 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	20	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	20	</p>
18			<p>
19	aloraine	80	The file named C_porcellus_Feb_2008.2bit contains sequence data and is from the UCSC Genome
20			Bioinformatics Web site. To convert a .2bit to fasta, use twoBitToFa. The file
21	aloraine	20	<a href="genome.txt">genome.txt</a> lists sequences and their sizes and was made from
22			C_porcellus_Feb_2008.2bit 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>