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Created An Answer That Has Been Accepted
Awarded 5048 times (see all awards). Earned by the
following contributors:
10 months, 2 weeks ago
United States
Answer: Merging of Human and Mouse SingleCellExperiment Objects Error
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
United States
Answer: How to interpret log2fold values when using numeric contrasts in DESEQ2?
10 months, 3 weeks ago
WEHI, Melbourne, Australia
Answer: filtering lowly expressed reads
11 months, 2 weeks ago
United States
Answer: Txdb object for UCSC hs1 (T2T-CHM13)
11 months, 3 weeks ago
United States
Answer: Reduce single cell experiment size to use as reference for annotation with Singl
11 months, 3 weeks ago
WEHI, Melbourne, Australia
Answer: removeBatchEffect with non-linear model fit
11 months, 3 weeks ago
United States
Answer: What is the meaning of "CpG interrogation" and "single nucleotide extension(SBE)
11 months, 3 weeks ago
WEHI, Melbourne, Australia
Answer: Correct the batch effect in methylation analysis in R
11 months, 4 weeks ago
WEHI, Melbourne, Australia
Answer: Filter genes by expression for voomLmFit
1 year ago
United States
Answer: limma::voom vs edgeR::voomLmFit - when to use?
1 year ago
EMBL Heidelberg
Answer: biomaRtl returns multiple GO terms when filtering on a single GO term in ensembl
1 year ago
WEHI, Melbourne, Australia
Answer: Is it appropriate to apply linear mixed models to Voom transformed data?
1 year ago
United States
Answer: STRINGdb R package reference class instantiation with v12.0
1 year ago
United States
Answer: DESeq2: Comparison of single clinical sample to 4 normals using tumour cohort t
1 year ago
WEHI, Melbourne, Australia
Answer: limma + voom combine voomWithQualityWeights and duplicateCorrelation
1 year ago
Germany
Answer: trying to add SingleR label to Seurat Object fails
1 year, 1 month ago
Seattle, WA, United States
Answer: Error in Gviz (actually, rtracklayer) | IdeogramTrack
1 year, 1 month ago
WEHI, Melbourne, Australia
Answer: DecideTest vs topTAGs in edgeR
1 year, 1 month ago
United States
Answer: Need help generating BSgenome and orgdb
1 year, 1 month ago
WEHI, Melbourne, Australia
Answer: [Bug] Segfault in edgeR::cpm
1 year, 1 month ago
United States
Answer: Subsetting Range Summarized Experiment
1 year, 1 month ago
United States
Answer: Annotation Dbi Error: unable to find an inherited method for function 'x' for si
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
United States
Answer: SeqSQC R library, functions PCA and IBD not working
1 year, 1 month ago
WEHI, Melbourne, Australia
Answer: limma: More differentially expressed genes when factor included in model than wh
1 year, 1 month ago
Cambridge, UK
Answer: DiffBind dba.analyze function doesn't have bSubControl option anymore?
1 year, 1 month ago
United States
Answer: DiffBind returns different grey lists every time I run dba.blacklist even if I s
1 year, 2 months ago
Germany
Answer: ComBat_seq function in sva package does not return a matrix
1 year, 2 months ago
WEHI, Melbourne, Australia
Answer: Batch correction and repeated measures
1 year, 2 months ago
United States
Answer: Remove duplicates of colData in TreeSummarizedExperiment
1 year, 2 months ago
Seattle, WA, United States
Answer: DataFrame Construction With Non-standard Column
1 year, 2 months ago
WEHI, Melbourne, Australia
Answer: EdgeR and DESeq2, variance estimation and parametric test
1 year, 2 months ago
WEHI, Melbourne, Australia
Answer: Phenotype effect - building a contrast matrix - grouping vs interaction
1 year, 2 months ago
Wageningen University, Wageningen, the …
Answer: Cluster profiler emap plot - what are the annotations?
1 year, 3 months ago
WEHI, Melbourne, Australia
Answer: Import Salmon data with tximport and pool technical replicates
1 year, 3 months ago
United States
Answer: Import Salmon data with tximport and pool technical replicates
1 year, 3 months ago
Wageningen University, Wageningen, the …
Answer: Broken UNITE 9.0 link (General FASTA Release)
1 year, 3 months ago
WEHI, Melbourne, Australia
Answer: removing the batch effect for vst counts and defining the batches in removeBatch
1 year, 3 months ago
Germany
Answer: Zero counts for all samples for all genes downloaded from recount3
1 year, 3 months ago
Germany
Answer: DESeq2: full model matrix is less than full rank
1 year, 4 months ago
WEHI, Melbourne, Australia
Answer: Adding a group of samples reduces DEGs in other groups
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