User: François Lefebvre

Reputation:
40
Status:
New User
Location:
Canada
Last seen:
2 years, 8 months ago
Joined:
6 years, 5 months ago
Email:
l*******@gmail.com

Posts by François Lefebvre

<prev • 4 results • page 1 of 1 • next >
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Ballgown vs (voom,edgeR,DESeq,limma)
... Hi all, How would you use the ballgown package in conjunction with voom, edgeR, DESeq, limma? The bioarXiv paper seems to be making the claim that ballgown gaps the bridge between cufflinks and tools like Limma, Voom, edgeR, DEseq.   I don’t understand how voom, edgeR and DEseq can by used at the ...
rnaseq limma differential expression voom written 2.8 years ago by François Lefebvre40 • updated 2.8 years ago by Alyssa Frazee110
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inSilicoMerging:::mergeCOMBAT covariates
... Hi, I was testing the package inSilicoMerging, particularly to perform the COMBAT batch effect removal. The original paper http://www.biomedcentral.com/1471-2105/13/335 sort of advertises the package handles covariates. However there seems to be no way to tell the merge function which column of ...
insilicomerging written 3.6 years ago by François Lefebvre40 • updated 3.6 years ago by Quentin De Clerck10
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GOseq with ce6
... Hi all, Our RNA-seq pipeline uses GOseq, and we are thankful to the authors for offering this great tools. GOseq crashed on us today on C. elegans data with the error": "Couldn't grab GO categories automatically. Please manually specify." The workaround is to use the non-native mechanism. Aft ...
go yeast organism goseq genomes written 3.6 years ago by François Lefebvre40 • updated 3.6 years ago by Nadia Davidson260
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Pre-filtering and the gene universe of gene set tests in microarray analysis
... Hi, This question regards how various gene set testing methods deal with pre-filtered (non-specifically) data sets. Don’t genes in a gene set that did not pass a filter constitute important evidence “against” that gene set? Not taking them into account when calculating whatever gene set summary st ...
written 6.4 years ago by François Lefebvre40 • updated 6.4 years ago by Matthew J Arno60

Latest awards to François Lefebvre

Popular Question 2.7 years ago, created a question with more than 1,000 views. For Ballgown vs (voom,edgeR,DESeq,limma)

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