/[genomes]/quickload/V_cardui_Feb_2021/HEADER.md
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revision 203 by pkulzer, Tue Dec 17 15:09:57 2024 UTC revision 227 by pkulzer, Tue Mar 18 14:18:06 2025 UTC
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3  <h1>Vanessa cardui (Feb 2021) painted lady (ilVanCard2.1) genome assembly</h1>  <h1>Vanessa cardui (Feb 2021) painted lady (ilVanCard2.1)</h1>
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5  The files listed below are formatted for visualization in the Integrated Genome  The files listed below are formatted for visualization in the Integrated Genome
6  Browser, available from <a href="https://bioviz.org">BioViz.org</a>.  Browser, available from <a href="https://bioviz.org">BioViz.org</a>.
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9  Annotation features (gff) files were downloaded from NCBI Genome (<a href="ncbi.nlm.nih.gov/datasets/genome/">ncbi.nlm.nih.gov/datasets/genome/</a>). See the <a href="annots.xml">annots.xml</a> meta-data file in this directory for details.  The "bed.gz" format file contains gene models from a GFF-format file downloaded from the NCBI Genomes Web page for <a href="https://www.ncbi.nlm.nih.gov/datasets/genome/GCF_905220365.1/">Genome assembly ilVanCard2.1</a>.
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12  Files with extension .gz were compressed and indexed using bgzip and  More information about this genome assembly and its gene models can be found in the following publication: <a href="https://pubmed.ncbi.nlm.nih.gov/37008186/">The genome sequence of the painted lady, Vanessa cardui Linnaeus 1758</a>.
 tabix tools from <a href="https://www.htslib.org">htslib.org</a>.  
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 The file named V_cardui_Feb_2021.2bit contains sequence data. It was originally downloaded in fasta format from NCBI Genome and then converted to 2bit by running the faToTwoBit program provided by UCSC. The file <a href="genome.txt">genome.txt</a> lists sequences and their sizes. It was made from the V_cardui_Feb_2021.2bit sequence file using the twoBitInfo program.  
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 Both twoBitInfo and faToTwoBit are available from <a href="http://hgdownload.cse.ucsc.edu/admin/exe/">http://hgdownload.cse.ucsc.edu/admin/exe/</a>.  
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