User: Lluís R

gravatar for Lluís R
Lluís R210
Reputation:
210
Status:
Trusted
Location:
European Union
Last seen:
7 hours ago
Joined:
2 years, 2 months ago
Email:
l************@gmail.com

I am the author and maintainer of the BioCor package

Posts by Lluís R

<prev • 101 results • page 1 of 11 • next >
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Answer: A: Normalization of specificity level (level of depth) of GO terms dataset
... If you want to take into account the depth of a GO term you can use topGO algorithms (specially weight01) which is a package for performing GO enrichment analysis.. With GOSemSim and GOSim you could calculate the similarity between those GO and somehow take that into account when analyzing the enri ...
written 8 hours ago by Lluís R210
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Comment: C: Error when using the showGroupDensity function in topGO
... What happen if you don't use the print(...), do you gt the same error? Which version of topGO are you using? ...
written 7 days ago by Lluís R210
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Comment: C: WGCNA error in network construction ?
... I am sorry to hear your problems: 1) the error seems to indicate you, or the process, got disconnected from the server. Or that it is too big to be handled properly. 2) That are warnings, not errors so you have already the network in visant format or whatever exportNetworkToVisANT returns in the v ...
written 8 days ago by Lluís R210
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Comment: C: WGCNA error in network construction ?
... I think you should use datExpr instead of datExpr0. But check with your advisor. ...
written 10 days ago by Lluís R210
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Comment: C: WGCNA error in network construction ?
... There is a function in WGCNA to export the network too cytoscape and visant, look in the manual. You only need the adjacency matrix. ...
written 10 days ago by Lluís R210
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Comment: C: WGCNA error in network construction ?
... The time spend depends on the server. You can use nohup to keep the process going even if you disconnect from the server (I am assuming a Unix server). You can use blockwiseModules to do it automatically, see tutorial 1) 2.c ...
written 10 days ago by Lluís R210
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Comment: C: WGCNA error in network construction ?
... It is normal to spend some time in that step. of "...matrix multiplication". Be patient ...
written 10 days ago by Lluís R210
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Comment: C: WGCNA error in network construction ?
... What do you mean by "it did not work", which error/problem did you have? ...
written 14 days ago by Lluís R210
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Comment: C: WGCNA error in network construction ?
... Sorry I don't understand what do you mean when you say "I used  dataExpr0 it has the data instead of Expr " could you post a piece of your data? If you already calculated the TOM why are you later calculating the adjacency? What do you mean by "I have spc"? ...
written 16 days ago by Lluís R210
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Comment: C: WGCNA error in network construction ?
... What is the dimension of your datExpr? Could you post the output of dim(datExpr)? Maybe there aren't any samples left after the quality control of goodSamplesGenes. ...
written 16 days ago by Lluís R210

Latest awards to Lluís R

Centurion 8 hours ago, created 100 posts.
Scholar 2.2 years ago, created an answer that has been accepted. For A: WGCNA: What is `soft thresholding`?
Supporter 2.2 years ago, voted at least 25 times.

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