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<h1>Daphnia magna (Apr 2010) water flea (Xinb3 v2.4) 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_magna_Apr_2010.2bit contains sequence data from <a href="ftp://ftp.ensemblgenomes.org/pub/metazoa/release-44/fasta/daphnia_magna/dna/Daphnia_magna.daphmag2.4.dna.toplevel.fa.gz">ftp://ftp.ensemblgenomes.org/pub/metazoa/release-44/fasta/daphnia_magna/dna/Daphnia_magna.daphmag2.4.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_magna_Apr_2010.2bit 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>.
</p>
<p>
The file named D_magna_Apr_2010.bed.gz contains gene models obtained from <a href="ftp://ftp.ensemblgenomes.org/pub/metazoa/release-44/gff3/daphnia_magna/Daphnia_magna.daphmag2.4.44.gff3.gz">ftp://ftp.ensemblgenomes.org/pub/metazoa/release-44/gff3/daphnia_magna/Daphnia_magna.daphmag2.4.44.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>.
</p>
<p>
Data associated with paper: <a href="https://www.ncbi.nlm.nih.gov/pubmed/15752432">wFleaBase: the Daphnia genome database</a>
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[ICO]NameLast modifiedSizeDescription
[PARENTDIR]Parent Directory  -  
[ ]annots.xml2023-06-16 13:36 534 Annotation and data file list
[ ]D_magna_Apr_2010.bed.gz.tbi2023-06-16 13:36 140KTabix index file
[TXT]genome.txt2023-06-16 13:36 492KChromosome lengths and assembly information
[ ]D_magna_Apr_2010.bed.gz2023-06-16 13:36 1.2MAnnotation or junction file
[ ]D_magna_Apr_2010.2bit2023-06-16 13:36 32MSequence data in blat 2bit format
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