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Created An Answer That Has Been Accepted
Awarded 5053 times (see all awards). Earned by the
following contributors:
3 years, 2 months ago
United States
Answer: Understanding output of Negative Binomial in DESeq2
3 years, 3 months ago
United States
Answer: Warning messages on Apple M1 BigSur
3 years, 3 months ago
WEHI, Melbourne, Australia
Answer: EdgeR, tumor normal pair, no replicatie but multiple patients, to focus on indi
3 years, 3 months ago
United Kingdom
Answer: Correct way to make multiple comparisons on DESeq2?
3 years, 3 months ago
United States
Answer: Converting between UCSC id and gene symbol with bioconductor annotation resource
3 years, 3 months ago
United States
Answer: How to build a GRangesList where each GRanges element is a CDS coordinate of gen
3 years, 3 months ago
United States
Answer: How to subset GRangesList by seqnames
3 years, 3 months ago
San Diego
Answer: Sequencing depth before and aftr normalisation with DESEQ2 doesn't look as expec
3 years, 3 months ago
Cambridge, UK
Answer: Diffbind: differences between design vs no design (same comparison)?
3 years, 3 months ago
United States
Answer: How to obtain a GC content file to use in HMMcopy?
3 years, 3 months ago
Cambridge, UK
Answer: DiffBind fold parameter vs. IfcThreshold in DESeq2
3 years, 3 months ago
Cambridge, UK
Answer: DiffBind (Error in if (DBA$config$parallelPackage))
3 years, 4 months ago
Republic of Ireland
Answer: ylim and xlim in Enhanced Volcano
3 years, 4 months ago
WEHI, Melbourne, Australia
Answer: Query regarding the use of eBayes + topTable and treat + topTreat
3 years, 4 months ago
WEHI, Melbourne, Australia
Answer: Query regarding the use of eBayes + topTable and treat + topTreat
3 years, 4 months ago
WEHI, Melbourne, Australia
Answer: Query regarding the use of eBayes + topTable and treat + topTreat
3 years, 4 months ago
United States
Answer: Biomart's getBM returns no genes for an existing GO-term in grch38, and less the
3 years, 4 months ago
United States
Answer: Normalizing 5' Nascent RNA-seq data to identify differentially expressed transcr
3 years, 4 months ago
United States
Answer: derfinder model.matrix with limma or single base-level F-statistics analysis
3 years, 4 months ago
Wageningen University, Wageningen, the …
Answer: [PrimeView] Affymetrix Human Gene Expression Array
3 years, 4 months ago
United States
Answer: Accession ID Conversion and Missing Results
3 years, 5 months ago
United States
Answer: batch effect and size factor differences: vst vs. rlog
3 years, 5 months ago
United States
Answer: Why does samples order subtly influence the results of DESeq2?
3 years, 5 months ago
United States
Answer: DESeq2, geometric means using posCounts
3 years, 5 months ago
Cambridge, UK
Answer: how to construct a DBA object from count matrix
3 years, 5 months ago
United States
Answer: DRIMSeq: many NAs in results compared to DESeq2 ?
3 years, 5 months ago
The city by the bay
Answer: diffHic's totalCounts fails with multiple files, but rest of test code works
3 years, 5 months ago
EMBL Heidelberg
Answer: Temporal directory setting for DelayedArray
3 years, 5 months ago
United States
Answer: importing RSEM isoform to Gene Name with tximport
3 years, 5 months ago
San Diego
Answer: Doing multiple comparisons in a DESeq2 object with multiple conditions
3 years, 5 months ago
United States
Answer: Downloading count matrix for full recount3 dataset
3 years, 5 months ago
United States
Answer: R NanoStringDiff: DE analysis, from 2 group comparison method how "logFC" genera
3 years, 5 months ago
Barcelona/Universitat Pompeu Fabra
Answer: Questions regard to GSVA and Limma
3 years, 5 months ago
Barcelona/Universitat Pompeu Fabra
Answer: Turn of GSVA filtering for method ssGSEA
3 years, 5 months ago
United States
Answer: DESeq2 with two continuous variable in a design
3 years, 5 months ago
United States
Answer: estimateSizeFactors before or after removing non-coding genes and filtering for
3 years, 5 months ago
Cambridge, UK
Answer: DiffBind Error in if (file.info(peaks)$size > 0) { : missing value where TRUE
3 years, 5 months ago
Republic of Ireland
Answer: EnhancedVolcano Label Question
3 years, 5 months ago
Seattle, WA, United States
Answer: Generating a DelayedArray with a size greater than .Machine$integer.max
3 years, 6 months ago
Wageningen University, Wageningen, the …
Answer: GoSemSim
3 years, 6 months ago
United States
Answer: dispersion increasing for extreme high mean counts
3 years, 6 months ago
WEHI, Melbourne, Australia
Answer: Complex design with paired and unpaired samples with edgeR RNA-seq DE analysis
3 years, 6 months ago
WEHI, Melbourne, Australia
Answer: lmFit, continuous exposure, adjustment covariates
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