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Sorting Amino Acid Sequences
I have a a set of three fasta files with amino acid sequences. Can you suggest me scripts to separate out sequences that are common, and as well that are different among each of the three fasta files?
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Last edited by satishg; 08-25-2015, 11:39 AM. -
Look into CD-HIT (http://weizhongli-lab.org/cdhit_suite/cgi-bin/index.cgi). Depending on how large your files are you may need to contact the lab. -
Thanks ! I was able to install it locally. I will explore it.Comment
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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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