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<h1>Daphnia pulex (Feb 2011) water flea (TCO v1.0) 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>
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
<a href="genome.txt">genome.txt</a> lists sequences and their sizes and was made from 
D_pulex_Feb_2011.2bit sequence file using twoBitInfo. Both twoBitInfo and twoBitToFa are
available from <a href="http://hgdownload.cse.ucsc.edu/admin/exe/">http://hgdownload.cse.ucsc.edu/admin/exe/</a>.
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<p>
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
tabix tools from <a href="https://www.htslib.org">htslib.org</a>.
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<p>
Data associated with paper: <a href="https://www.ncbi.nlm.nih.gov/pubmed/21292972">The ecoresponsive genome of Daphnia pulex</a>
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[ICO]NameLast modifiedSizeDescription
[PARENTDIR]Parent Directory  -  
[ ]annots.xml2023-06-16 13:52 526 Annotation and data file list
[ ]D_pulex_Feb_2011.bed.gz.tbi2023-06-16 13:52 74KTabix index file
[TXT]genome.txt2023-06-16 13:52 128KChromosome lengths and assembly information
[ ]D_pulex_Feb_2011.bed.gz2023-06-16 13:52 1.2MAnnotation or junction file
[ ]D_pulex_Feb_2011.2bit2023-06-16 13:52 47MSequence data in blat 2bit format
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