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<h1>Daphnia pulex (Sep 2016) water flea (PA42 v3.0) 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>
The file named D_pulex_Sep_2016.2bit contains sequence data from <a href="https://sra-download.ncbi.nlm.nih.gov/traces/wgs03/wgs_aux/FL/TH/FLTH01/FLTH01.1.fsa_nt.gz">https://sra-download.ncbi.nlm.nih.gov/traces/wgs03/wgs_aux/FL/TH/FLTH01/FLTH01.1.fsa_nt.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_Sep_2016.2bit 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_pulex_Sep_2016.bed.gz contains gene models obtained from <a href="https://www.g3journal.org/highwire/filestream/483384/field_highwire_adjunct_files/3/File_S3.zip">https://www.g3journal.org/highwire/filestream/483384/field_highwire_adjunct_files/3/File_S3.zip</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/28235826">A New Reference Genome Assembly for the Microcrustacean Daphnia pulex</a>
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[ICO]NameLast modifiedSizeDescription
[PARENTDIR]Parent Directory  -  
[TXT]genome.txt2023-06-16 14:32 34KChromosome lengths and assembly information
[ ]annots.xml2023-06-16 14:32 522 Annotation and data file list
[ ]D_pulex_Sep_2016.bed.gz.tbi2023-06-16 14:32 37KTabix index file
[ ]D_pulex_Sep_2016.bed.gz2023-06-16 14:32 896KAnnotation or junction file
[ ]D_pulex_Sep_2016.2bit2023-06-16 14:32 37MSequence data in blat 2bit format
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