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Created An Answer That Has Been Accepted
Awarded 5092 times (see all awards). Earned by the
following contributors:
4 years, 2 months ago
WEHI, Melbourne, Australia
Answer: Query regarding the use of eBayes + topTable and treat + topTreat
4 years, 2 months ago
WEHI, Melbourne, Australia
Answer: Query regarding the use of eBayes + topTable and treat + topTreat
4 years, 2 months ago
United States
Answer: Biomart's getBM returns no genes for an existing GO-term in grch38, and less the
4 years, 2 months ago
United States
Answer: Normalizing 5' Nascent RNA-seq data to identify differentially expressed transcr
4 years, 2 months ago
The Cave, 181 Longwood Avenue, Boston, …
Answer: Compare two samples by Deseqs
4 years, 2 months ago
United States
Answer: derfinder model.matrix with limma or single base-level F-statistics analysis
4 years, 3 months ago
Wageningen University, Wageningen, the …
Answer: [PrimeView] Affymetrix Human Gene Expression Array
4 years, 3 months ago
United States
Answer: Accession ID Conversion and Missing Results
4 years, 3 months ago
United States
Answer: batch effect and size factor differences: vst vs. rlog
4 years, 3 months ago
United States
Answer: Why does samples order subtly influence the results of DESeq2?
4 years, 3 months ago
United States
Answer: DESeq2, geometric means using posCounts
4 years, 3 months ago
Cambridge, UK
Answer: how to construct a DBA object from count matrix
4 years, 3 months ago
United States
Answer: DRIMSeq: many NAs in results compared to DESeq2 ?
4 years, 3 months ago
The city by the bay
Answer: diffHic's totalCounts fails with multiple files, but rest of test code works
4 years, 3 months ago
The Cave, 181 Longwood Avenue, Boston, …
Answer: A permanent error in DESeq2
4 years, 3 months ago
EMBL Heidelberg
Answer: Temporal directory setting for DelayedArray
4 years, 3 months ago
United States
Answer: importing RSEM isoform to Gene Name with tximport
4 years, 3 months ago
San Diego
Answer: Doing multiple comparisons in a DESeq2 object with multiple conditions
4 years, 3 months ago
United States
Answer: Downloading count matrix for full recount3 dataset
4 years, 3 months ago
United States
Answer: R NanoStringDiff: DE analysis, from 2 group comparison method how "logFC" genera
4 years, 3 months ago
Barcelona/Universitat Pompeu Fabra
Answer: Questions regard to GSVA and Limma
4 years, 3 months ago
Barcelona/Universitat Pompeu Fabra
Answer: Turn of GSVA filtering for method ssGSEA
4 years, 3 months ago
United States
Answer: DESeq2 with two continuous variable in a design
4 years, 3 months ago
United States
Answer: estimateSizeFactors before or after removing non-coding genes and filtering for
4 years, 3 months ago
Cambridge, UK
Answer: DiffBind Error in if (file.info(peaks)$size > 0) { : missing value where TRUE
4 years, 4 months ago
The Cave, 181 Longwood Avenue, Boston, …
Answer: EnhancedVolcano Label Question
4 years, 4 months ago
Seattle, WA, United States
Answer: Generating a DelayedArray with a size greater than .Machine$integer.max
4 years, 4 months ago
Wageningen University, Wageningen, the …
Answer: GoSemSim
4 years, 4 months ago
United States
Answer: dispersion increasing for extreme high mean counts
4 years, 4 months ago
WEHI, Melbourne, Australia
Answer: Complex design with paired and unpaired samples with edgeR RNA-seq DE analysis
4 years, 4 months ago
WEHI, Melbourne, Australia
Answer: lmFit, continuous exposure, adjustment covariates
4 years, 4 months ago
United States
Answer: edgeR calcNormFactors or normalize with voom?
4 years, 4 months ago
United States
Answer: How does the empirical Bayes moderation (eBayes) in the limma pipeline work?
4 years, 4 months ago
Barcelona/Universitat Pompeu Fabra
Answer: Issue with GSVA using dgCMatrix
4 years, 4 months ago
Australia
Answer: Rsubread issue with featurecounts :----------- FAILURE REPORT -------------- --
4 years, 4 months ago
The city by the bay
Answer: scater::calculatePCA error when using BPPARAM = MulticoreParam
4 years, 4 months ago
Seattle, WA, United States
Answer: Block processing matrices of different dimensions with DelayedArray
4 years, 4 months ago
United States
Answer: RNAseq : identical sample-sample distances after using limma::removeBatchEffect
4 years, 4 months ago
WEHI, Melbourne, Australia
Answer: Use of arrayWeights with two treatment groups
4 years, 4 months ago
Cambridge, UK
Answer: DiffBind -- Error: No sites have activity greater than minMaxval
4 years, 4 months ago
EMBL Heidelberg
Answer: BiomaRt connection error: Could not connect to mysql database ensembl_mart_104
4 years, 4 months ago
United States
Answer: Convert DataFrame to data.frame While Keeping Column Name Syntax
4 years, 4 months ago
EMBL Heidelberg
Answer: Processing time of blockApply and DelayedArray
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