User: Lluís R

gravatar for Lluís R
Lluís R310
Reputation:
310
Status:
Trusted
Location:
European Union
Last seen:
2 days, 3 hours ago
Joined:
3 years, 3 months ago
Email:
l************@gmail.com

I am the author and maintainer of the BioCor package

Posts by Lluís R

<prev • 181 results • page 2 of 19 • next >
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Comment: C: Error topGO printGenes
... you don't pass a function to geneSel, do you? Could you paste the output of `print(GOdata)`? ...
written 10 weeks ago by Lluís R310
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Comment: C: Error topGO printGenes
... Could you provide how did you create your GOdata? This way the example is reproducible and I can check how to solve it. Thanks ...
written 10 weeks ago by Lluís R310
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Comment: C: What is the impact of using GOSeq to voom-adjusted RNA-seq Expressions ?
... Is cqn normalization method not desirable (it takes into account gene length and GC content) then? Thanks ...
written 11 weeks ago by Lluís R310
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Comment: C: custom background list for ReactomePA
... That means that you are filtering by size of the gene sets and that they are smaller than 10 genes. Without knowing the specific format I can't provide advice. Could you ask a new question with the file (or part of it) describing the format and what have you tried to import it? ...
written 3 months ago by Lluís R310
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Comment: C: custom background list for ReactomePA
... The universe is the genes of the background so you can pass a vector like c("G1", "G2", "G3", ...) enrichPathway will use it. ...
written 3 months ago by Lluís R310
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Comment: C: How to create the colData for a complex experiment
... Hi Levi, I didn't explain myself well, sorry.  I have some samples linked to a location (biopsies from 5 regions) and some that aren't (stools) [or that they are are always from the same region]. I have two essays for the biopsies (RNA-seq and 16S-seq) and one assay for the stools (16S-seq). My ma ...
written 4 months ago by Lluís R310
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How to create the colData for a complex experiment
... I have a dataset where for the same patient and time we have extracted different samples from different locations. What would be the best way to encode this in MAE? Patient Time Region State of the region A 0 A Healthy   A 0 B Injured ...
multiassayexperiment coldata written 4 months ago by Lluís R310 • updated 4 months ago by Levi Waldron410
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Comment: C: STATegRa Minimum number of samples
... I can't reproduce the error without data, I can't reproduce the error with the vignette data and I won't post online my data, but I updated to include the relevant part of the code. ...
written 4 months ago by Lluís R310
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STATegRa Minimum number of samples
... I observed that the function omicsCompAnalysis fails with less than 9 samples. Is this a hard requirement or is due to some particularity of my data? With the same code I got several errors with different subsets of the same data: subscript out of bounds arguments imply differing number of rows: 4, ...
stategra written 4 months ago by Lluís R310
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Comment: C: WGCNA error on block number related.
... It seems like you are mixing objects from the first dendrogram with the second one. But I am unsure if the code you show us is the real one or not ...
written 4 months ago by Lluís R310

Latest awards to Lluís R

Scholar 9 months ago, created an answer that has been accepted. For A: WGCNA: What is `soft thresholding`?
Teacher 9 months ago, created an answer with at least 3 up-votes. For A: Does anyone need to install an R package which is used by another package as imp
Voter 10 months ago, voted more than 100 times.
Centurion 12 months ago, created 100 posts.
Scholar 3.3 years ago, created an answer that has been accepted. For A: WGCNA: What is `soft thresholding`?
Supporter 3.3 years ago, voted at least 25 times.

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