quickload/O_latipes_Jul_2017/HEADER.md

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<h1>Oryzias latipes (Jul 2017) Japanese rice fish (Medaka) (ASM223467v1) genome assembly</h1>
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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 features (gff) files were downloaded from NCBI Genome (<a href="ncbi.nlm.nih.gov/datasets/genome/">ncbi.nlm.nih.gov/datasets/genome/</a>). See the <a href="annots.xml">annots.xml</a> meta-data file in this directory for details.
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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 O_latipes_Jul_2017.2bit contains sequence data. It was originally downloaded in fasta format from NCBI Genome and then converted to 2bit by running the faToTwoBit program provided by UCSC. The file <a href="genome.txt">genome.txt</a> lists sequences and their sizes. It was made from the O_latipes_Jul_2017.2bit sequence file using the twoBitInfo program.
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Both twoBitInfo and faToTwoBit are available from <a href="http://hgdownload.cse.ucsc.edu/admin/exe/">http://hgdownload.cse.ucsc.edu/admin/exe/</a>.
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1	pkulzer	202	<html>
2			<body>
3			<h1>Oryzias latipes (Jul 2017) Japanese rice fish (Medaka) (ASM223467v1) 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 features (gff) files were downloaded from NCBI Genome (<a href="ncbi.nlm.nih.gov/datasets/genome/">ncbi.nlm.nih.gov/datasets/genome/</a>). See the <a href="annots.xml">annots.xml</a> meta-data file in this directory for details.
10			</p>
11			<p>
12			Files with extension .gz were compressed and indexed using bgzip and
13			tabix tools from <a href="https://www.htslib.org">htslib.org</a>.
14			</p>
15			<p>
16			The file named O_latipes_Jul_2017.2bit contains sequence data. It was originally downloaded in fasta format from NCBI Genome and then converted to 2bit by running the faToTwoBit program provided by UCSC. The file <a href="genome.txt">genome.txt</a> lists sequences and their sizes. It was made from the O_latipes_Jul_2017.2bit sequence file using the twoBitInfo program.
17			</p>
18			<p>
19			Both twoBitInfo and faToTwoBit are available from <a href="http://hgdownload.cse.ucsc.edu/admin/exe/">http://hgdownload.cse.ucsc.edu/admin/exe/</a>.
20			</p>
21			</body>
22			</html>