| 1 |
<html> |
| 2 |
<body> |
| 3 |
<h1>Daphnia pulex (Feb 2011) water flea (TCO v1.0) genome assembly</h1> |
| 4 |
<p> |
| 5 |
The files listed below are formatted for visualization in the Integrated Genome Browser, available from <a href="https://bioviz.org">BioViz.org</a>. |
| 6 |
</p> |
| 7 |
<p> |
| 8 |
The file named D_pulex_Feb_2011.2bit contains sequence data from <a href="ftp://ftp.ensemblgenomes.org/pub/metazoa/release-44/fasta/daphnia_pulex/dna/Daphnia_pulex.V1.0.dna.toplevel.fa.gz">ftp://ftp.ensemblgenomes.org/pub/metazoa/release-44/fasta/daphnia_pulex/dna/Daphnia_pulex.V1.0.dna.toplevel.fa.gz</a>. To convert a .2bit to fasta, use twoBitToFa. The file |
| 9 |
<a href="genome.txt">genome.txt</a> lists sequences and their sizes and was made from |
| 10 |
D_pulex_Feb_2011.2bit sequence file using twoBitInfo. Both twoBitInfo and twoBitToFa are |
| 11 |
available from <a href="http://hgdownload.cse.ucsc.edu/admin/exe/">http://hgdownload.cse.ucsc.edu/admin/exe/</a>. |
| 12 |
</p> |
| 13 |
<p> |
| 14 |
The file named D_pulex_Feb_2011.bed.gz contains gene models obtained from <a href="ftp://ftp.ensemblgenomes.org/pub/metazoa/release-44/gff3/daphnia_pulex/Daphnia_pulex.V1.0.44.gff3.gz">ftp://ftp.ensemblgenomes.org/pub/metazoa/release-44/gff3/daphnia_pulex/Daphnia_pulex.V1.0.44.gff3.gz</a>. Files with extension .gz were compressed and indexed using bgzip and |
| 15 |
tabix tools from <a href="https://www.htslib.org">htslib.org</a>. |
| 16 |
</p> |
| 17 |
<p> |
| 18 |
Data associated with paper: <a href="https://www.ncbi.nlm.nih.gov/pubmed/21292972">The ecoresponsive genome of Daphnia pulex</a> |
| 19 |
</p> |
| 20 |
</body> |
| 21 |
</html> |
Parent Directory
| 
Revision Log