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I am looking to convert gff files to refFlat
does anyone have any scripts I can use to do this conversion?
Thanks
does anyone have any scripts I can use to do this conversion?
Thanks
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Do you mean refFlat to GFF? -
Do you know of any script that I can use to convert refFlat to GFF3 or raw juncs format for use with TopHat?Comment
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Download refFlat in GTF format from UCSC and then convert to GFF3 using the script found here:Originally posted by btuser View Post
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Thank you!Comment
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I’m not a sequencing expert. I’m a purification scientist who uses NGS to evaluate workflows my group develops. With this perspective, we think about the sample first and the NGS workflow second. The sequencer is an exceptionally honest reporter, but it can only report on what you give it, so whether you get clean, interpretable data from an NGS workflow is largely determined before you begin.
Here are nine questions we think about, in roughly the order they matter, before...06-18-2026, 07:11 AM -
Data variability is still an issue in sequencing technologies despite the advances in reproducibility and accuracy of these platforms. But the problem does not originate in the sequencing itself, but in the previous steps, before the sample reaches the sequencer.
The first step is collection, followed by preservation and sample preparation for analysis. Most scientists overlook those steps, but not being careful might just be skewing the experiment’s results.
...06-02-2026, 10:05 AM
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