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<h1>Chinese Spring bread wheat genome sequence IWGSC RefSeqv1.0</h1> |
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This directory contains annotation and sequence data files from the bread wheat (Chinese Spring) IWGSC RefSeqv1.0 assembly version 1. Files are formatted for visualization in <a href="https://bioviz.org">Integrated Genome Browser</a> (IGB). |
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Files include: |
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2bit file - sequence file in two-bit format, created using |
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faToTwoBit. |
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When users click <b>Load Sequence</b> buttons, IGB retrieves sequence data from this file. The 2bit file name must match the genome version. |
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To obtain a copy of faToTwoBit, visit <a href="http://hgdownload.cse.ucsc.edu/admin/exe/">http://hgdownload.cse.ucsc.edu/admin/exe/</a>. |
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annots.xml - meta-data file that lists available data sets and specifies how they will look once loaded into <a href="http://bioviz.org/igb">Integrated Genome Browser</a>. |
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<li>genome.txt - meta-data file that lists genomic sequences and their sizes, created using twoBitInfo using the 2bit file. To obtain a copy of twoBitInfo, visit <a href="http://hgdownload.cse.ucsc.edu/admin/exe/">http://hgdownload.cse.ucsc.edu/admin/exe/</a> |
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<li>reference gene model annotations in bed or bed detail format, compressed using bgzip and indexed using tabix (See: <a href="http://bioinformatics.oxfordjournals.org/content/27/5/718">Tabix: fast retrieval of sequence features from generic TAB-delimited files</a> and <a href="http://genome.ucsc.edu/FAQ/FAQformat.html">http://genome.ucsc.edu/FAQ/FAQformat.html</a>.) |
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<b>Note:</b> Gene model annotation files have been re-formatted for fast transfer over the internet and for visualization in IGB. |
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For more information about quickload, visit <a href="https://bioviz.org">bioviz.org</a> and visit the on-line, searchable IGB User's Guide. |
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