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Answer: Answer: really low padj value from DESeq2
22 months ago ATpoint ★ 4.8k
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Answer: Answer: PCA for QC should include subset of top variable genes or full set of genes in R
22 months ago ATpoint ★ 4.8k
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Comment: Comment: Normalization of different input materials
22 months ago ATpoint ★ 4.8k
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904
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Answer: Answer: DESEQ2 differential expression for subsets of data?
22 months ago ATpoint ★ 4.8k
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2.8k
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Comment: Comment: Choosing between VST and rlog for PCA for outlier identification in DESeq2 when
22 months ago ATpoint ★ 4.8k
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Answer: Answer: plotCounts label each sample
22 months ago ATpoint ★ 4.8k
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2.8k
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Comment: Comment: Choosing between VST and rlog for PCA for outlier identification in DESeq2 when
22 months ago ATpoint ★ 4.8k
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1.6k
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Answer: Answer: What GENCODE GFF file for calculating exon length for TPM
22 months ago ATpoint ★ 4.8k
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Comment: Comment: fastMNN reproducibility across machines when using Docker
22 months ago ATpoint ★ 4.8k
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970
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Answer: Answer: Normalization of different input materials
22 months ago ATpoint ★ 4.8k
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790
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Answer: Answer: WGCNA Cluster batch effect
22 months ago ATpoint ★ 4.8k
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1.9k
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Comment: Comment: DESeq2 package unrecognized after downloading latest version of R: keep getting
22 months ago ATpoint ★ 4.8k
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886
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Answer: Answer: limma paired design
22 months ago ATpoint ★ 4.8k
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Answer: Answer: runPCA in a SingleCellExperiment results ina colMeans error
22 months ago ATpoint ★ 4.8k
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Answer: Answer: Hub genes selection in WGCNA
22 months ago ATpoint ★ 4.8k
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1.2k
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Comment: Comment: 'Killed' error during RNAseq alignment
22 months ago ATpoint ★ 4.8k
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Comment: Comment: Get Intron Seq
22 months ago ATpoint ★ 4.8k
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1.9k
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Answer: Answer: DESeq2 package unrecognized after downloading latest version of R: keep getting
22 months ago ATpoint ★ 4.8k
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1.3k
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Comment: Comment: DESeq2 with nbinomGLM issues
22 months ago ATpoint ★ 4.8k
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833
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Comment: Comment: RNA seq differential expression analysis
22 months ago ATpoint ★ 4.8k
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11k
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Answer: Answer: scran ScoreMarkers throws a warning
22 months ago ATpoint ★ 4.8k
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1.0k
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Answer: Answer: tximport error in reading salmon output files?
22 months ago ATpoint ★ 4.8k
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4.4k
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Answer: Answer: Making MDS plot
22 months ago ATpoint ★ 4.8k
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1.4k
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Answer: Answer: DESeq2 lfcShrink function used in DiffBind package
22 months ago ATpoint ★ 4.8k
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1.4k
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Answer: Answer: Fishpond/Swish Interaction Test Error
22 months ago ATpoint ★ 4.8k
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922
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Comment: Comment: Can DESeq2 handle low number of samples and replicates?
22 months ago ATpoint ★ 4.8k
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2.9k
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Answer: Answer: Whether to build DESeq2 model with all data and then contrast groups or subset g
22 months ago ATpoint ★ 4.8k
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858
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Answer: Answer: mia package installation has non-zero exit status
22 months ago ATpoint ★ 4.8k
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667
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Answer: Answer: DESeq2 how to extract expression values corresponding to log2FoldChange
22 months ago ATpoint ★ 4.8k
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1.7k
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Comment: Comment: Failure of beta estimates to converge in DESeq2 despite noncollinearity and reas
22 months ago ATpoint ★ 4.8k
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1.7k
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Comment: Comment: Failure of beta estimates to converge in DESeq2 despite noncollinearity and reas
22 months ago ATpoint ★ 4.8k
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814
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Answer: Answer: Individual DESeq2 runs versus a single DESeq2 run with contrasts produce differe
22 months ago ATpoint ★ 4.8k
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528
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Answer: Answer: Several questions about the workflow using DESeq2 to process RNA data
22 months ago ATpoint ★ 4.8k
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1.9k
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Comment: Comment: P-value histogram of testLinearModel is not uniform
22 months ago ATpoint ★ 4.8k
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1.3k
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Answer: Answer: DESeq2 on multilevel design variable
22 months ago ATpoint ★ 4.8k
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1.2k
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Comment: Comment: Extract Limma Adjusted Values for Plotting
23 months ago ATpoint ★ 4.8k
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2.0k
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Answer: Answer: Handling NA's in Deseq2
23 months ago ATpoint ★ 4.8k
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1.2k
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Answer: Answer: Remove duplicate genera in DEseq output?
23 months ago ATpoint ★ 4.8k
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1.1k
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Comment: Comment: Recount3: PCR duplicates
23 months ago ATpoint ★ 4.8k
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894
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Answer: Answer: Normalized counts from LRT or Wald test?
23 months ago ATpoint ★ 4.8k
2
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807
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Answer: Answer: DESeq2 or edgeR for Presence and Absence of Proteins
23 months ago ATpoint ★ 4.8k
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6.6k
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Comment: Comment: Visualization of negative log CPM values
23 months ago ATpoint ★ 4.8k
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6.6k
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Comment: Comment: Visualization of negative log CPM values
23 months ago ATpoint ★ 4.8k
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1.1k
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Answer: Answer: DoparParam() execution fails when foreach() works
23 months ago ATpoint ★ 4.8k
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1.5k
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Answer: Answer: Nanostring data differential expression analysis: limma or DESeq2?
23 months ago ATpoint ★ 4.8k
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815
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Answer: Answer: how to solve this error
23 months ago ATpoint ★ 4.8k
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1.5k
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Comment: Comment: How to update a package at Bioconductor
23 months ago ATpoint ★ 4.8k
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Comment: Comment: Installing densvis on a Singularity container
23 months ago ATpoint ★ 4.8k
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Answer: Answer: Subsetting DESeq data set to compare treatments within one group (multi-group ex
23 months ago ATpoint ★ 4.8k
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2.7k
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Comment: Comment: optimHess problem in apeglm/DESeq2
23 months ago ATpoint ★ 4.8k
1,056 results • Page 9 of 22
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