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Add Populus trichocarpa v2 and v3 genomes, collected from Phytozome
| 1 | aloraine | 46 | <html> |
| 2 | <body> | ||
| 3 | <h1>Poplar genome version 3</h1> | ||
| 4 | <p> | ||
| 5 | Files listed below are formatted for visualization in the Integrated Genome | ||
| 6 | Browser, available from <a href="https://bioviz.org">BioViz.org</a>. | ||
| 7 | </p> | ||
| 8 | <p> | ||
| 9 | The file named P_trichocarpa_Aug_2012.bed.gz contains data reformatted from: | ||
| 10 | <ul> | ||
| 11 | <li>ftp://ftp.jgi-psf.org/pub/compgen/phytozome/v9.0/Ptrichocarpa/annotation/Ptrichocarpa_210_defline.txt | ||
| 12 | <li>ftp://ftp.jgi-psf.org/pub/compgen/phytozome/v9.0/Ptrichocarpa/annotation/Ptrichocarpa_210_gene_exons.gff3.gz | ||
| 13 | </ul> | ||
| 14 | <p> | ||
| 15 | See the <a href="annots.xml">annots.xml</a> meta-data file in this directory for | ||
| 16 | description and date of download. | ||
| 17 | </p> | ||
| 18 | <p> | ||
| 19 | Files with extension .gz were compressed and indexed using bgzip and | ||
| 20 | tabix tools from Heng Li. | ||
| 21 | </p> | ||
| 22 | <p> | ||
| 23 | The .2bit file contains sequence data reformatted from: | ||
| 24 | </p> | ||
| 25 | <p> | ||
| 26 | ftp://ftp.jgi-psf.org/pub/compgen/phytozome/v9.0/Ptrichocarpa/assembly/Ptrichocarpa_210.fa.gz | ||
| 27 | </p> | ||
| 28 | <p> | ||
| 29 | Re-formatting was done using twoBitToFa from <a href="http://hgdownload.cse.ucsc.edu/admin/exe/">http://hgdownload.cse.ucsc.edu/admin/exe/</a>. | ||
| 30 | </p> | ||
| 31 | </body> | ||
| 32 | </html> |
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