Re: bioperl newbie's question: simple GFF3 peocessing

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Re^2: bioperl newbie's question: simple GFF3 peocessing by daverave (Scribe) on Jul 31, 2010 at 09:10 UTC
How do you filter for such features?	[reply]
Re^3: bioperl newbie's question: simple GFF3 peocessing by BrowserUk (Patriarch) on Jul 31, 2010 at 09:18 UTC
Well first your read a line of the file; then parse it into the nine fields; and the test the 9th column for a 'locus_tag=', using index or a regex. If it contains one, store the record in an array or to another file.	[reply]
Re^4: bioperl newbie's question: simple GFF3 peocessing by daverave (Scribe) on Jul 31, 2010 at 09:22 UTC
thank you, but I think it might be wasteful given that this is a standard file format supported by bioperl. I got some help from this: http://doc.bioperl.org/releases/bioperl-1.0.1/Bio/SeqFeatureI.html, I hope I will get it right.	[reply]
Re^5: bioperl newbie's question: simple GFF3 peocessing by BrowserUk (Patriarch) on Jul 31, 2010 at 09:40 UTC
Re^6: bioperl newbie's question: simple GFF3 peocessing by daverave (Scribe) on Jul 31, 2010 at 09:48 UTC
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