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Awarded 653 times for: created an answer with at least 3 up-votes

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gravatar for Ryan C. Thompson
1 day ago to
The Scripps Research Institute, La Jolla, CA
For: A: What's the relationship between "design" and "contrasts"?
gravatar for Aaron Lun
3 days ago to
Aaron Lun13k
Cambridge, United Kingdom
For: A: Limma-voom contrast confusion
gravatar for Gordon Smyth
3 days ago to
Gordon Smyth30k
Walter and Eliza Hall Institute of Medical Research, Melbourne, Australia
For: A: limma; Only fit list of certain genes/ filter eSet
gravatar for James W. MacDonald
5 days ago to
United States
For: A: Normalization factor in TMM method
gravatar for James W. MacDonald
5 days ago to
United States
For: A: Normalization factor in TMM method
gravatar for Aaron Lun
8 days ago to
Aaron Lun13k
Cambridge, United Kingdom
For: A: Limma-voom contrast confusion
gravatar for florian.hahne@novartis.com
9 days ago to
Switzerland
For: A: Create custom IdeogramTrack (Gviz)
gravatar for James W. MacDonald
11 days ago to
United States
For: A: Normalization factor in TMM method
gravatar for Gordon Smyth
15 days ago to
Gordon Smyth30k
Walter and Eliza Hall Institute of Medical Research, Melbourne, Australia
For: A: limma; Only fit list of certain genes/ filter eSet
gravatar for anand_mt
17 days ago to
anand_mt40
For: A: about MAFTOOLS and MAF files
gravatar for Valerie Obenchain
29 days ago to
Valerie Obenchain ♦♦ 5.9k
United States
For: A: about collapsed and expanded vcf file
gravatar for Lucas Schiffer
5 months ago to
CUNY School of Public Health, New York, NY
For: A: ExperimentHub()[["EH359"]] has character expression values
gravatar for shepherl
10 months ago to
shepherl ♦♦ 160
For: A: survcomp package - censor missing
gravatar for Aaron Lun
10 months ago to
Aaron Lun13k
Cambridge, United Kingdom
For: A: Rsubread featureCounts with strand information
gravatar for Aaron Lun
10 months ago to
Aaron Lun13k
Cambridge, United Kingdom
For: A: Can featurecounts count number of mapped reads rapidly in arbitrary regions?
gravatar for Aaron Lun
10 months ago to
Aaron Lun13k
Cambridge, United Kingdom
For: A: csaw - workflow to incorporate input/control samples?
gravatar for Aaron Lun
10 months ago to
Aaron Lun13k
Cambridge, United Kingdom
For: A: how to use edgeR analysis RNA-seq data with a obvious deviation sample
gravatar for Aaron Lun
10 months ago to
Aaron Lun13k
Cambridge, United Kingdom
For: A: norm.factors in TMM normalisation
gravatar for Aaron Lun
10 months ago to
Aaron Lun13k
Cambridge, United Kingdom
For: A: limma Time Course Experiment with many time points
gravatar for Aaron Lun
10 months ago to
Aaron Lun13k
Cambridge, United Kingdom
For: A: Combining newer/older RNAseq data, batch correcting
gravatar for Aaron Lun
10 months ago to
Aaron Lun13k
Cambridge, United Kingdom
For: A: duplicateCorrelation and Pearson Correlation
gravatar for Aaron Lun
10 months ago to
Aaron Lun13k
Cambridge, United Kingdom
For: A: EdgeR: is more than one control per batch an issue?
gravatar for Aaron Lun
10 months ago to
Aaron Lun13k
Cambridge, United Kingdom
For: A: deseq2, edger different number of replicates and extraction kit
gravatar for Aaron Lun
10 months ago to
Aaron Lun13k
Cambridge, United Kingdom
For: A: design matrix in GLM
gravatar for Aaron Lun
10 months ago to
Aaron Lun13k
Cambridge, United Kingdom
For: A: Error when calculating DE using the classical approach in edgeR
gravatar for Aaron Lun
10 months ago to
Aaron Lun13k
Cambridge, United Kingdom
For: A: DE for genes with very low counts using limma.
gravatar for Aaron Lun
10 months ago to
Aaron Lun13k
Cambridge, United Kingdom
For: A: Design matrix and contrast for RNA knockdown experiment
gravatar for Aaron Lun
10 months ago to
Aaron Lun13k
Cambridge, United Kingdom
For: A: Model matrix for anova in limma
gravatar for Aaron Lun
10 months ago to
Aaron Lun13k
Cambridge, United Kingdom
For: A: Scaling before normalisation in RNASeq
gravatar for Aaron Lun
10 months ago to
Aaron Lun13k
Cambridge, United Kingdom
For: A: EDGE-R exact test vs QL F-test
gravatar for Aaron Lun
10 months ago to
Aaron Lun13k
Cambridge, United Kingdom
For: A: ANOVA using edgeR
gravatar for Aaron Lun
10 months ago to
Aaron Lun13k
Cambridge, United Kingdom
For: A: How to do contrasts in CAMERA/ROMER/ROAST/etc in Limma?
gravatar for Aaron Lun
10 months ago to
Aaron Lun13k
Cambridge, United Kingdom
For: A: gene dispersion, what does it mean?
gravatar for Aaron Lun
10 months ago to
Aaron Lun13k
Cambridge, United Kingdom
For: A: Mutation effect on expression (RNA-Seq) using limma
gravatar for Aaron Lun
10 months ago to
Aaron Lun13k
Cambridge, United Kingdom
For: A: One replicate (one-color OR two-color) is enough to use Limma?
gravatar for Aaron Lun
10 months ago to
Aaron Lun13k
Cambridge, United Kingdom
For: A: ROAST after edgeR glmTreat and average RPKM filter
gravatar for Aaron Lun
10 months ago to
Aaron Lun13k
Cambridge, United Kingdom
For: A: voom with combat
gravatar for Aaron Lun
10 months ago to
Aaron Lun13k
Cambridge, United Kingdom
For: A: Using edgeR or DESeq2 to analyze allele-specific expression?
gravatar for Aaron Lun
10 months ago to
Aaron Lun13k
Cambridge, United Kingdom
For: A: Limma un moderated t-test
gravatar for Aaron Lun
10 months ago to
Aaron Lun13k
Cambridge, United Kingdom
For: A: design matrix - control for biological replicates
gravatar for Aaron Lun
10 months ago to
Aaron Lun13k
Cambridge, United Kingdom
For: A: Batch with only one sample or condition
gravatar for Aaron Lun
10 months ago to
Aaron Lun13k
Cambridge, United Kingdom
For: A: Is it valid to use only genes of interest before eBayes step in limma?
gravatar for Aaron Lun
10 months ago to
Aaron Lun13k
Cambridge, United Kingdom
For: A: edgeR - how to convert DGELRT and other classes to .csv files
gravatar for Aaron Lun
10 months ago to
Aaron Lun13k
Cambridge, United Kingdom
For: A: Csaw : filter windows based on matched negative control
gravatar for Aaron Lun
10 months ago to
Aaron Lun13k
Cambridge, United Kingdom
For: A: edgeR TMM values

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