User: Lluís R

gravatar for Lluís R
Lluís R370
Reputation:
370
Status:
Trusted
Location:
European Union
Last seen:
17 hours ago
Joined:
3 years, 6 months ago
Email:
l************@gmail.com

I am the author and maintainer of the BioCor package

Posts by Lluís R

<prev • 191 results • page 1 of 20 • next >
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Comment: C: topGO enrichment analysis
... topGO requires a list of genes and the p-values associated with these genes. But you need to create the topGOdata object in order to be able to use the test ...
written 8 days ago by Lluís R370
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Comment: C: topGO: how to rettrieve (long) GO term description without abbreviating
... I haven't been using topGO for a while, but I think it could output the whole term name, but maybe it is not displayed (or I could be wrong). ...
written 11 days ago by Lluís R370
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Comment: C: topGO: how to rettrieve (long) GO term description without abbreviating
... Perhaps you can use a workaround looking into the GO.db package for the terms of these ids.   ...
written 12 days ago by Lluís R370
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Comment: C: pathview: Warning: Download of hsa04110 xml and png files failed!
... This is not the latest version of R nor of Biocondutor, for these reason I would recommend you to upgrade your R and Bioconductor versions and check in the new version if the error persist. ...
written 12 days ago by Lluís R370
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Answer: A: TopGO ks test using a score different from p-value
... Theoretically yes, you could use it, you would need to change the selectFun argument, and provide a function that selects the desired genes. However, I think you won't be able to do it because, what I recall when I tried, the selectFun hadn't changed (it is x < 0.05) and it didn't select any gen ...
written 13 days ago by Lluís R370
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Comment: C: pathview: Warning: Download of hsa04110 xml and png files failed!
... Could you please provide the version of the package you use and the R version number ...
written 13 days ago by Lluís R370
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Comment: C: MultiAssayExperiment: how to store data for multiple cancer lesions for each pat
... Ok, I'll try it next time. I wasn't sure it was possible to encode this. Mainly the biological unit can be interpreted differently: a biological unit is the type of lesion or the patient or the biopsy; depending on the question it can be either of them. Many thanks for resolving the issue. PS: I di ...
written 21 days ago by Lluís R370
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Comment: C: MultiAssayExperiment: how to store data for multiple cancer lesions for each pat
... Could you please provide an example of how to encode the following SummarizedExperiments in the MultiAssayExperiment colData. SE1: | biopsy | patient| lesion | |--------|--------|--------| | 1 | HC | A | SE2: | biopsy | patient| lesion | |--------|--------|--------| | 1 | HC | ...
written 21 days ago by Lluís R370
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Comment: C: Prostar (query on GO analysis)
... It would help if you could provide the code that it is returning this error, and even more if we had the data or some sample data that could reproduce the error. ...
written 10 weeks ago by Lluís R370
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Comment: C: WGCNA TOMType specification
... That would depend on what you are looking for, if you want to have genes that follow the same pattern then use signed hybrid, otherwise use unsigned, or if you want to be in the middle use the "signed" option ...
written 10 weeks ago by Lluís R370

Latest awards to Lluís R

Teacher 9 weeks 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
Teacher 12 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
Scholar 12 months ago, created an answer that has been accepted. For A: WGCNA: What is `soft thresholding`?
Scholar 12 months ago, created an answer that has been accepted. For A: Does anyone need to install an R package which is used by another package as imp
Scholar 12 months ago, created an answer that has been accepted. For A: WGCNA: What is `soft thresholding`?
Teacher 12 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 13 months ago, voted more than 100 times.
Centurion 15 months ago, created 100 posts.
Supporter 3.5 years ago, voted at least 25 times.
Scholar 3.5 years ago, created an answer that has been accepted. For A: WGCNA: What is `soft thresholding`?

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