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<h1>Gallus gallus (Nov 2011) chicken (galGal4/ICGC Gallus-gallus-4.0) 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>
Annotation (bed) and alignment (psl) files (if available) were downloaded from the UCSC Genome
Bioinformatics Table Browser. Each file is named for its corresponding table in the
UCSC Genome database. See the <a href="annots.xml">annots.xml</a> meta-data file in
this directory for details.
</p>
<p>
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>
The file named G_gallus_Nov_2011.2bit contains sequence data and is from the UCSC Genome
Bioinformatics Web site. 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 
G_gallus_Nov_2011.2bit sequence file using twoBitInfo.
</p>
<p>
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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[ICO]NameLast modifiedSizeDescription
[PARENTDIR]Parent Directory  -  
[ ]annots.xml2023-06-16 13:15 1.0KAnnotation and data file list
[TXT]genome.txt2023-06-16 13:15 379KChromosome lengths and assembly information
[ ]G_gallus_Nov_2011_refGene.bed.gz2023-06-16 13:15 481KData from UCSC refGene table
[ ]G_gallus_Nov_2011_all_est.psl.gz2023-06-16 13:15 35MPSL (alignments) blat output file
[ ]G_gallus_Nov_2011_all_mrna.psl.gz2023-06-16 13:15 1.8MPSL (alignments) blat output file
[ ]G_gallus_Nov_2011.2bit2023-06-16 13:15 296MSequence data in blat 2bit format
[ ]G_gallus_Nov_2011_all_est.psl.gz.tbi2023-06-16 13:15 413KTabix index file
[ ]G_gallus_Nov_2011_all_mrna.psl.gz.tbi2023-06-16 13:15 146KTabix index file
[ ]G_gallus_Nov_2011_refGene.bed.gz.tbi2023-06-16 13:15 53KTabix index file
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