1 |
<html> |
2 |
<body> |
3 |
<h1>Danio rerio (Jul 2010) zebrafish (danRer7/Zv9) 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 D_rerio_Jul_2010.2bit 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 |
D_rerio_Jul_2010.2bit 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> |