quickload/H_vulgaris_Apr_2024/HEADER.md

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<h1>Hydra vulgaris (Apr 2024) Swiftwater hydra (HydraT2T_AEP) 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 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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<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 H_vulgaris_Apr_2024.2bit 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 H_vulgaris_Apr_2024.2bit sequence file using the twoBitInfo program.
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<p>
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	<html>
2	<body>
3	<h1>Hydra vulgaris (Apr 2024) Swiftwater hydra (HydraT2T_AEP) 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 H_vulgaris_Apr_2024.2bit 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 H_vulgaris_Apr_2024.2bit 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>