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I think i used to use 4.2.2. But i don't have the archive to install it (i didn't install it on our cluster).
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Hi,
I just want to reiterate how crazy double encoding is! Thought we were having problems with our aligner as the 'reads' weren't mapping to the reference. Why on earth did ABI pick those 4 letters? Why even double encode in the first place?!
Thanks Rick!Comment
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i hope people realize converting to fastq is probably one of the worst ways to analyze cs data.Comment
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SeqAA, could you describe your workflow?Comment
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SeqAA - agree.
People, if you want to analyse Solid data properly use colour space. If you're forced into the dark arts of base space conversion i.e. for de novo assembly I would strongly recommend reading the supplements of this paper:
Iverson et al. 2012, Science : Untangling genomes from metagenomes ....Comment
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I generally use galaxy to do most of my conversionsComment
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Love this - good data definitely starts from good input, and poor input can only give relatively poor data. I particularly like the mention of Nanodrop/absorbance based methods for quantification. It's such a toss up if you'll get an accurate reading or what amounts to a randomly generated number, and a lot of library/sequencing related issues can be traced back to poor quant.07-01-2026, 11:43 AM
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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...
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