Converting binary GFF3 to text
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7.5 years ago
novice ★ 1.1k

I'm trying to look at the features of S. Pombe's genome but the GFF3 annotation file (downloaded from here) seems to be binary. This is weird because I know GFF files are text files. How can I convert it to a tab-delimited text file?

gff annotation • 2.9k views
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PomBase files appear to be corrupt. In my haste I tried unzip instead of gunzip. @Michael has directions for what you need to do.

As an alternate: Ensembl also has the Pombe gff files.

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Thank you! Both of these solutions worked.

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7.5 years ago
Michael 54k
$ file schizosaccharomyces_pombe.chr.gff3
schizosaccharomyces_pombe.chr.gff3: gzip compressed data, from Unix, last modified: Thu Oct 20 13:14:13 2016
$ mv  schizosaccharomyces_pombe.chr.gff3 schizosaccharomyces_pombe.chr.gff3.gz
SunTzu:Downloads$  gunzip schizosaccharomyces_pombe.chr.gff3.gz
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