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KEGGREST using keggGet() for over 10 results and URL errors for unexisting records

pathways keggrest keggget enzymes list of list written 19 days ago by gualapuro.moises • 0

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102

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Normalizing CAZy data

genome annotation cazy fungi enzymes written 3 months ago by msobol • 10

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341

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How to characterise a protein "enzyme", and find evolutionary divergence into two distinct pathways?

pathway proteins enzymes protocol written 8 months ago by arpankbasak • 10

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2.7k

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Identify restriction sites of a cDNA sequence using a dictionary

python biopython restriction enzymes dictionary written 4.6 years ago by albamaria.muniesa • 0 • updated 4.6 years ago by Biojl • 1.6k

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Gold Standard to Kevin Blighe ♦ 39k
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Recent Replies

C: Error when doing gwas with hail by Pierre Lindenbaum ♦ 117k
it's the only error message ? there is no stacktrace ?
C: removing confounding batch effect with RUVseq by grant.hovhannisyan • 1.4k
well, no magic here. The package assumes that you know in advance genes that do not change the ex...
C: Multiline Fasta To Single Line Fasta by Pierre Lindenbaum ♦ 117k
https://gist.github.com/lindenb/2c0d4e11fd8a96d4c345
C: removing confounding batch effect with RUVseq by b.nota ♦ 6.2k
I don't think there is any tool or method that can do this for you. It is a flaw in your design, ...
C: HTSeq error while counting reads by lieven.sterck ♦ 4.1k
Please provide much more context for this issue. It's kinda hard to investigate this given the cu...
A: Using Salmon to quantify immature RNA? by lieven.sterck ♦ 4.1k
Sounds like an OK plan to me and I don't see any immediate issues with it. The only thing might...
C: read count normalization by Kevin Blighe ♦ 39k
That is not what I asked. When you execute just `list.files(pattern = ".count")` at the command p...
C: Multiline Fasta To Single Line Fasta by lieven.sterck ♦ 4.1k
you can use the answer provided by https://www.biostars.org/u/375/ below. (it's not using tail)
C: combining z-scores into a single z-score value by zx8754 ♦ 6.7k
Maybe `sum(p)/sqrt(numberOfSamples)` ?
C: Cufflinks transcriptome (To build or not to build?) by kristoffer.vittingseerup • 1.6k
Even if you just want gene-expression I would recommend doing the transcription level quantificat...
C: high q value of RNA-seq(By Hisat2-Stringtie-Ballgown) by i.sudbery ♦ 4.0k
I wouldn't worry about the mapQ numbers, I each aligner sets these differently and I think that H...
C: high q value of RNA-seq(By Hisat2-Stringtie-Ballgown) by i.sudbery ♦ 4.0k
I have edited your post to make it more readable. Numbered lists are created by using a number, t...

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