User: Lluís R

gravatar for Lluís R
Lluís R370
Reputation:
370
Status:
Trusted
Location:
European Union
Last seen:
21 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 2 of 20 • next >
0
votes
0
answers
112
views
0
answers
Comment: C: how to run GO enrichment analysis for non-model organisms (errors when using hyp
... are your genes in mygsc in the same fashion as in genes? How do you  map from your ids of genes to gene ontology terms ? ...
written 3 months ago by Lluís R370
0
votes
0
answers
131
views
0
answers
Comment: C: How to compare RNA-seq counts matrices from different aligners ?
... Are they in the same id name? Are they for the same sample? Then you can do a PCA for each matrix, and compare the results. Are the same samples near the same other samples? ...
written 3 months ago by Lluís R370
0
votes
0
answers
146
views
0
answers
Comment: C: Problems with the correct installation of GOseq
... The first error says: "installation path not writeable, unable to update package", you seem to need to update the packages to installl GOseq. Which version of R and Bioconductor are you using? Are they up to date? ...
written 4 months ago by Lluís R370
0
votes
0
answers
123
views
0
answers
Comment: C: Using topGO for GO Enrichment on methylation markers (Illumina 450k)
... Consider editing your original question with this new information and deleting this question. As it seems that the question is already answer that way. ...
written 4 months ago by Lluís R370
0
votes
2
answers
186
views
2
answers
Answer: A: choose between normalization techniques for OTU counts
... You should have a look to the metagenomeSeq package where there is a normalization procedure for this kind of data. There are a couple of papers worth mentioning: "Waste Not, Want Not: Why Rarefying Microbiome Data Is Inadmissible": About subsampling to the number of reads in 16S sequencing "Propor ...
written 4 months ago by Lluís R370
0
votes
2
answers
211
views
2
answers
Comment: C: how to get the last version of tximport
... Which version of R and Bioconductor are you running? You seem to be using the Bioconductor version 3.4 ...
written 4 months ago by Lluís R370
0
votes
0
answers
168
views
0
answers
Comment: C: topGO error : could not find function "annotationFun"
... Could you post your session info? Did you look at the manual page from page 8 and on? ...
written 4 months ago by Lluís R370
0
votes
1
answers
109
views
1
answers
Answer: A: Gene Set Enrichment based on gene presence/absence
... If I understood you correctly you want to compare if your organism has more genes or less in the same KO terms. You could use BioCor package using mpathSim to compare if between the same KO terms despite having different genes are still similar between them. It is not the same as you requested, but ...
written 4 months ago by Lluís R370
0
votes
0
answers
264
views
0
answers
Comment: C: GOenrichmentAnalysis of WGCNA mocules in Zea mays
... This package doesn't seem to exists. See this for creating it yourself. ...
written 5 months ago by Lluís R370
0
votes
0
answers
146
views
0
answers
Comment: C: Unannotated genes in TopGO
... How do you create the GOdata for topGO? As you show it seems like a list, but it is usually done from an annotation package. Have you checked it with the vignette? ...
written 5 months 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`?

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.2.0
Traffic: 146 users visited in the last hour