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<h1>Pan troglodytes (Oct 2010) chimpanzee (CGSC 2.1.3/panTro3) 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 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 P_troglodytes_Oct_2010.2bit contains sequence data and was downloaded from the UCSC Genome
Bioinformatics <a href="http://hgdownload-test.sdsc.edu/downloads.html">downloads
page</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 
P_troglodytes_Oct_2010.2bit 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>.
</p>
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[ICO]NameLast modifiedSizeDescription
[DIR]Parent Directory  -  
[   ]P_troglodytes_Oct_2010.2bit27-Sep-2018 13:23 822MSequence data in blat 2bit format
[   ]P_troglodytes_Oct_2010_all_est.psl.gz27-Sep-2018 13:23 784KPSL (alignments) blat output file
[   ]P_troglodytes_Oct_2010_all_est.psl.gz.tbi27-Sep-2018 13:23 85KTabix index file
[   ]P_troglodytes_Oct_2010_all_mrna.psl.gz27-Sep-2018 13:23 288KPSL (alignments) blat output file
[   ]P_troglodytes_Oct_2010_all_mrna.psl.gz.tbi27-Sep-2018 13:23 36KTabix index file
[   ]P_troglodytes_Oct_2010_refGene.bed.gz27-Sep-2018 13:23 115KData from UCSC refGene table
[   ]P_troglodytes_Oct_2010_refGene.bed.gz.tbi27-Sep-2018 13:23 24KTabix index file
[TXT]annots.xml27-Sep-2018 13:23 1.0KAnnotation and data file list
[TXT]genome.txt27-Sep-2018 13:23 654KChromosome lengths and assembly information
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