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Created An Answer That Has Been Accepted
Awarded 5048 times (see all awards). Earned by the
following contributors:
1 week, 1 day ago
WEHI, Melbourne, Australia
Answer: Is it recommended to analyze different tissues together when using edgeR
1 week, 2 days ago
WEHI, Melbourne, Australia
Answer: Using voom-transformed counts for unsupervised analyses (PCA, Random Forest, Ela
2 weeks, 1 day ago
WEHI, Melbourne, Australia
Answer: Limma- Print-tip loess normalisation-printer layout information does not match M
1 month ago
WEHI, Melbourne, Australia
Answer: LIMMA Differing P-Values for Treatment-Contrast Parameterization vs Group-Means
1 month, 1 week ago
WEHI, Melbourne, Australia
Answer: Zero intra-block correlation in RRBS analysis using voomLmFit with block
1 month, 2 weeks ago
WEHI, Melbourne, Australia
Answer: How to subset voomLmFit (MArrayLM) object?
1 month, 3 weeks ago
WEHI, Melbourne, Australia
Answer: edgeR 4.2.1 compression bug: a minimally reproducible snippet
3 months ago
WEHI, Melbourne, Australia
Answer: voom does not seem to properly correct for library size
3 months, 2 weeks ago
WEHI, Melbourne, Australia
Answer: using limma trend workflow in CAMERA
3 months, 2 weeks ago
WEHI, Melbourne, Australia
Answer: One-sided tests with CAMERA-PR
3 months, 2 weeks ago
WEHI, Melbourne, Australia
Answer: RUV - Does my data need further normalisation?
4 months, 2 weeks ago
WEHI, Melbourne, Australia
Answer: LIMMA 2x2 Factorial Design with Paired Samples
5 months ago
WEHI, Melbourne, Australia
Answer: Using both voom and removeBatchEffect, will they double adjust the data or is it
6 months, 2 weeks ago
WEHI, Melbourne, Australia
Answer: How to correctly adjust for gender in edgeR
7 months, 1 week ago
WEHI, Melbourne, Australia
Answer: Why p value inconsistent when using different number of pathway score?
7 months, 1 week ago
WEHI, Melbourne, Australia
Answer: FilterByExpr low counts with small sample size
7 months, 2 weeks ago
WEHI, Melbourne, Australia
Answer: Light difference when using coef vs omit a group when compare 3 groups.
7 months, 4 weeks ago
WEHI, Melbourne, Australia
Answer: limma models out of memory issue on Slurm HPC
8 months ago
WEHI, Melbourne, Australia
Answer: Differing results from plotMDS and PCAtools
8 months ago
WEHI, Melbourne, Australia
Answer: The difference when using Limma compare between 3 conditions vs 2 conditions
8 months, 2 weeks ago
WEHI, Melbourne, Australia
Answer: edgeR, 3 x 2 design with a batch effect and contrasts
8 months, 2 weeks ago
WEHI, Melbourne, Australia
Answer: Question about extracting co-efficients for pairwise comparisons in edgeR
8 months, 3 weeks ago
WEHI, Melbourne, Australia
Answer: Constrast for Time Course Experiments using Limma
9 months, 2 weeks ago
WEHI, Melbourne, Australia
Answer: Confusion about LFC using contrasts weights in EdgeR
9 months, 2 weeks ago
WEHI, Melbourne, Australia
Answer: Normalization factors when there is a possible unidirectional expression
9 months, 3 weeks ago
WEHI, Melbourne, Australia
Answer: How does one test for interactions in EdgeR?
9 months, 3 weeks ago
WEHI, Melbourne, Australia
Answer: Design matrix after RUVg correction
9 months, 3 weeks ago
WEHI, Melbourne, Australia
Answer: Longitudinal analysis in Limma
9 months, 3 weeks ago
WEHI, Melbourne, Australia
Answer: How to get normalized values for methylation counts in edgeR
9 months, 3 weeks ago
WEHI, Melbourne, Australia
Answer: Limma design for 3 replicated time courses comparing treatment vs placebo
9 months, 3 weeks ago
WEHI, Melbourne, Australia
Answer: voom with quality weights after RUV correction
10 months ago
WEHI, Melbourne, Australia
Answer: Using limma for controlling age variable
10 months, 1 week ago
WEHI, Melbourne, Australia
Answer: [BUG] Rsubread::featureCounts quirk in CORE files: different target list orderin
10 months, 1 week ago
WEHI, Melbourne, Australia
Answer: Monotonic genes in results of differential gene expression analysis
10 months, 2 weeks ago
WEHI, Melbourne, Australia
Answer: EdgeR: Should I include all samples/conditions in my dispersion estimation while
10 months, 2 weeks ago
WEHI, Melbourne, Australia
Answer: filtering lowly expressed reads
11 months, 3 weeks ago
WEHI, Melbourne, Australia
Answer: removeBatchEffect with non-linear model fit
11 months, 3 weeks ago
WEHI, Melbourne, Australia
Answer: Correct the batch effect in methylation analysis in R
11 months, 3 weeks ago
WEHI, Melbourne, Australia
Answer: Filter genes by expression for voomLmFit
1 year ago
WEHI, Melbourne, Australia
Answer: Is it appropriate to apply linear mixed models to Voom transformed data?
1 year ago
WEHI, Melbourne, Australia
Answer: limma + voom combine voomWithQualityWeights and duplicateCorrelation
1 year, 1 month ago
WEHI, Melbourne, Australia
Answer: DecideTest vs topTAGs in edgeR
1 year, 1 month ago
WEHI, Melbourne, Australia
Answer: [Bug] Segfault in edgeR::cpm
1 year, 1 month ago
WEHI, Melbourne, Australia
Answer: limma::topTable with adjust.method=NULL is not BH corrected (manual is inconsist
1 year, 1 month ago
WEHI, Melbourne, Australia
Answer: limma: More differentially expressed genes when factor included in model than wh
1 year, 2 months ago
WEHI, Melbourne, Australia
Answer: Batch correction and repeated measures
1 year, 2 months ago
WEHI, Melbourne, Australia
Answer: EdgeR and DESeq2, variance estimation and parametric test
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