User: uki

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uki20
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Posts by uki

<prev • 8 results • page 1 of 1 • next >
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Comment: C: Is there no way to bypass the Windows requirement for working with Thermo RAW fi
... I was working with msconvert which is part of the Proteowizard toolkit. I have no issues working with MGF just the conversion from RAW -> anything else, without using a windows machine in between ...
written 9 weeks ago by uki20
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Is there no way to bypass the Windows requirement for working with Thermo RAW files
... I am working on a mac, and need to work with some raw files. Essentially I am working on a tool that works with MGF and MZML files. I am extremely frustrated by the fact the only way to carry out this conversion seems to be either doing it on a different computer running windows or installing window ...
proteomics mass-spectrometry ms/ms written 9 weeks ago by uki20 • updated 7 weeks ago by mobiusklein160
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Comment: C: How to set up expression data in line with "tidy" principles
... Thanks for the reply, although not in detail I was familiar with database normalization. The issue here is that I am not really dealing with a database, but rather reading in experimental data into R and working with it there. I get the notion of what you are suggesting but I think dividing the data ...
written 2.0 years ago by uki20
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How to set up expression data in line with "tidy" principles
... Disclaimer: I've posted this on Stats.SE as well, posting here as well since it hasn't gotten much attention there and it might actually be more relevant here. I have been reading up on [tidy-data concept][1] and the tidyr package, as well as some tutorials. I started to think how I would go about ...
proteomics R data written 2.1 years ago by uki20
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Comment: C: Is there a way to do batch queries to IMGT HighV-Quest db?
... My bad, I meant HighV-Quest ...
written 2.3 years ago by uki20
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Is there a way to do batch queries to IMGT HighV-Quest db?
... We have several million sequences divided across multiple (20+) files varying in size, some of which may contain up to 2M sequences. I've realized that IMGT HighV-quest web query has a limit of 500K sequences per query. Is there a way to batch queries or any mirror of this database that doesn't have ...
imgt ig sequencing written 2.4 years ago by uki20
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Seq.translate(myseq) vs. myseq.translate()
... This might be a rather trivial question but I am interested in what goes on under the hood, when you translate a nucleotide sequence to an amino acid sequence using Biopython (v: 1.66, if it's important) I dont really recall where I saw it but I was initially using what I can only refer to as `stat ...
ngs translation biopython written 2.7 years ago by uki20
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Is it possible to check if a sequence has a stop codon, without translating first?
... I recently started playing around with NGS data and Biopython, so this question might come as a bit of no-brainer to some but I havent quite figured it out on my own. I realize that it's pretty straight forward to check the AA sequence to see if there is a stop symbol, but since I filter those sequ ...
biopython sequencing written 2.8 years ago by uki20 • updated 2.8 years ago by John12k

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Popular Question 2.0 years ago, created a question with more than 1,000 views. For Is it possible to check if a sequence has a stop codon, without translating first?

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