/[genomes]/quickload/D_melanogaster_Jul_2014/HEADER.md
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Revision 25 - (show annotations)
Thu Sep 27 14:02:56 2018 UTC (3 years, 7 months ago) by aloraine
File size: 1468 byte(s)
Add Drosophila melanogaster (Jul 2014) fruit fly (dmel_r6.03_FB2014_06) assembly, collected from FlyBase
1 <html>
2 <body>
3 <h1>Drosophila melanogaster (Jul 2014) fruit fly (dmel_r6.03_FB2014_06/BDGP6) genome assembly</h1>
4 <p>
5 The 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 gene model annotation file (D_melanogaster_Jul_2014.bed.gz) was made from a GTF file
10 downloaded Nov. 22, 2014 from <a
11 href="ftp://ftp.flybase.net/genomes/Drosophila_melanogaster/dmel_r6.03_FB2014_06/gtf">ftp://ftp.flybase.net/genomes/Drosophila_melanogaster/dmel_r6.03_FB2014_06
12 /gtf</a>.
13 </p>
14 <p>
15 The file named D_melanogaster_Jul_2014.2bit contains sequence data. It
16 was made from fasta file named dmel-all-chromosome-r6.03.fasta.gz
17 downloaded
18 from <a href="ftp://ftp.flybase.net/genomes/Drosophila_melanogaster/dmel_r6.03_FB2014_06/fasta/">ftp://ftp.flybase.net/genomes/Drosophila_melanogaster/dmel_r6.03_FB2014_06/fasta</a>. To convert it back
19 to fasta, use twoBitToFa.
20 </p>
21 The file
22 <a href="genome.txt">genome.txt</a> lists sequences and their sizes and was made from
23 D_melanogaster_Jul_2014.2bit sequence file using twoBitInfo.
24 </p>
25 <p>
26 For more information,
27 see <a href="http://lorainelab.org/?p=457">this post</a>
28 at <a href="http://www.lorainelab.org">LoraineLab.org</a>.
29 </p>
30 <p>
31 You can get twoBitInfo, twoBitToFa, faToTwoBit, and related programs from <a href="http://hgdownload.cse.ucsc.edu/admin/exe/">http://hgdownload.cse.ucsc.edu/admin/exe/</a>.
32 </p>
33 </body>
34 </html>

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