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6 months, 2 weeks ago
United States
Answer: DESeq fitNbinomGLMs Warning Issue: In fitNbinomGLMs(objectNZ[fitidx, , drop = FA
1 year, 6 months ago
United States
Answer: Proper way to implement DESeq2 when comparing samples with trisomies?
1 year, 8 months ago
United States
Answer: Applying DESeq2 to (suspected) Poisson distributed gene expression data (in the
1 year, 12 months ago
United States
Answer: Clarification of what DESeq2::estimateSizeFactors controlGenes does and when it
2 years, 1 month ago
United States
Answer: Find ranges that are shared by 80% or more of 10 GRanges objects
2 years, 7 months ago
United States
Answer: Large difference between lfcshrink and non-shrunk DESeq2 results
2 years, 9 months ago
United States
Answer: confused with tximport counts abundance using salmon input
2 years, 11 months ago
United States
Answer: Replicating iDEP parameters in DESeq2; two conditions and an interaction term.
3 years, 1 month ago
United States
Answer: P-values change 100-fold with only a single count changed
3 years, 3 months ago
United States
Answer: DeSeq2 Comparing One group vs Two groups
3 years, 8 months ago
United States
Answer: Concatenating expression counts from different RNA-seq quantification tools
4 years ago
United States
Answer: log2 Fold Change in DESeq2 is not identical to FC calculated from normalized cou
4 years, 2 months ago
United States
Answer: Strategy to perform DESeq, DEXSeq workflow
4 years, 3 months ago
United States
A: Is it capable to analysis the unbalanced time course experiment by DESeq2?
4 years, 5 months ago
United States
A: logFC when counts are zero across all samples in the two groups
4 years, 6 months ago
United States
A: Odd DESeq2 results - high significance in genes with too many zeros
4 years, 7 months ago
United States
A: Using spike-in RNA for normalization of Salmon counts imported using Tximport
4 years, 7 months ago
United States
A: Correctly set contrast with DESeq2 for not full rank design matrix
4 years, 9 months ago
United States
A: Cannot extract size factor from DESeq2 analysis
4 years, 9 months ago
United States
A: Can NanoString data be analyzed using DESeq2?
4 years, 10 months ago
United States
A: RNA seq analysis using Deseq2 and apeglm lfc shrinkage
5 years, 4 months ago
United States
A: Variation between technical replicates (DESeq2, batch effects)
5 years, 5 months ago
United States
difference among tximport scaledTPM, lengthScaledTPM and the original TPM output by salmon/kallisto
5 years, 5 months ago
United States
difference among tximport scaledTPM, lengthScaledTPM and the original TPM output by salmon/kallisto
5 years, 5 months ago
United States
A: DESeq2 with multiple treatments but no replicates
5 years, 6 months ago
United States
difference among tximport scaledTPM, lengthScaledTPM and the original TPM output by salmon/kallisto
5 years, 7 months ago
United States
A: Removing batch effect with limma::removeBatchEffect() actually exacerbates the e
5 years, 8 months ago
United States
A: Batch Effect in DESeq2, how to control, how to remove it, how to address biologi
5 years, 8 months ago
United States
A: Is it appropriate to use DESeq2 to analyse MinION data that's been mapped to a t
5 years, 10 months ago
United States
A: dtuScaledTPM vs lengthScaledTPM in DTU analysis
5 years, 11 months ago
United States
A: DESeq2 w. pathway/network info as a prior knowledge
5 years, 11 months ago
United States
A: Detect genes that moved up or down over time in the same way in multiple strains
6 years ago
United States
How to set up appropriate analysis using sample type and condition for DESeq2
6 years ago
United States
[DESeq2] time series strain-specific differences over time
6 years ago
United States
Common differentially expressed genes between two cell lines
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