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Comment: Comment: can't open mghp.osn.xsede.org
20 months ago ATpoint ★ 4.8k
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Answer: Answer: FALSE error when checking a pre made sample data
20 months ago ATpoint ★ 4.8k
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Comment: Comment: bulk RNA-seq analysis using R : batch effect : One question concerning Combat-se
20 months ago ATpoint ★ 4.8k
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Answer: Answer: Recommendation for large.n in filterByExpr
20 months ago ATpoint ★ 4.8k
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Answer: Answer: DESeq2 error after installing BiocManager
20 months ago ATpoint ★ 4.8k
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Comment: Comment: lfcShrink() and batch effects in DESeq2
20 months ago ATpoint ★ 4.8k
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Answer: Answer: lfcShrink() and batch effects in DESeq2
20 months ago ATpoint ★ 4.8k
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Answer: Answer: Zero counts for all samples for all genes downloaded from recount3
20 months ago ATpoint ★ 4.8k
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Answer: Answer: Inquiring about Comparative Analysis without Replicates in NOIseq R Package
20 months ago ATpoint ★ 4.8k
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Comment: Comment: Difference between DESeqDataSetFromMatrix() function and DESeq() function
20 months ago ATpoint ★ 4.8k
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Answer: Answer: DESeq2: full model matrix is less than full rank
21 months ago ATpoint ★ 4.8k
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Answer: Answer: Difference between DESeqDataSetFromMatrix() function and DESeq() function
21 months ago ATpoint ★ 4.8k
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Answer: Answer: DESeq2 discrepancy in log2FC significance and normalized counts significance
21 months ago ATpoint ★ 4.8k
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Comment: Comment: insufficient unique points for computing knee/inflection points
21 months ago ATpoint ★ 4.8k
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Answer: Answer: If highly-expressed genes are upregulated, what happens to genes with lower expr
21 months ago ATpoint ★ 4.8k
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Comment: Comment: insufficient unique points for computing knee/inflection points
21 months ago ATpoint ★ 4.8k
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Comment: Comment: Adding a group of samples reduces DEGs in other groups
21 months ago ATpoint ★ 4.8k
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Comment: Comment: DESeq differential expression results are too stringet. How to relax my criteria
21 months ago ATpoint ★ 4.8k
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Answer: Answer: DESeq differential expression results are too stringet. How to relax my criteria
21 months ago ATpoint ★ 4.8k
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Answer: Answer: Same few genes repeated in DESeq2 Results
21 months ago ATpoint ★ 4.8k
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Comment: Comment: Same few genes repeated in DESeq2 Results
21 months ago ATpoint ★ 4.8k
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1.8k
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Comment: Comment: Same few genes repeated in DESeq2 Results
21 months ago ATpoint ★ 4.8k
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Comment: Comment: DESeq2 analysis
21 months ago ATpoint ★ 4.8k
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Answer: Answer: vmatchPattern on DNAstring set
21 months ago ATpoint ★ 4.8k
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Answer: Answer: DESeq2 analysis
21 months ago ATpoint ★ 4.8k
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Answer: Answer: Warning messages in detecting P-values
21 months ago ATpoint ★ 4.8k
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Comment: Comment: Applicability of AUCell to bulk RNA-seq
21 months ago ATpoint ★ 4.8k
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Comment: Comment: RNA seq differential expression analysis for large sample size
21 months ago ATpoint ★ 4.8k
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Comment: Comment: diffbind
21 months ago ATpoint ★ 4.8k
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Answer: Answer: RNA seq differential expression analysis for large sample size
21 months ago ATpoint ★ 4.8k
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Answer: Answer: Affymetrix hgu133plus2.db: How to best derive an expression value for genes that
21 months ago ATpoint ★ 4.8k
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702
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Answer: Answer: Building Multifactor Model in DESeq2
21 months ago ATpoint ★ 4.8k
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880
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Answer: Answer: Read methylation data from tar files on GEO (GSE73303)
21 months ago ATpoint ★ 4.8k
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2
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Answer: Answer: Unable to install DESeq2
21 months ago ATpoint ★ 4.8k
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1.1k
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Answer: Answer: Correct DESeq2 design for tumoral stage differences in tumoral and matched-norma
21 months ago ATpoint ★ 4.8k
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790
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Comment: Comment: I changed the reference in DGE contrasts by DESeq2, but the results changed just
21 months ago ATpoint ★ 4.8k
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Answer: Answer: For limma, if I leave coef=NULL, which test is the P value for?
21 months ago ATpoint ★ 4.8k
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Comment: Comment: Reading data into chromVAR
21 months ago ATpoint ★ 4.8k
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Comment: Comment: Pairwise comparison for DEG analysis
21 months ago ATpoint ★ 4.8k
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781
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Answer: Answer: DGE analysis for diseased samples through DESeq2 and Ballgown
21 months ago ATpoint ★ 4.8k
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1.1k
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Comment: Comment: lfc direction of effect flipped for ashr, apeGLM, but accurate to biological dat
21 months ago ATpoint ★ 4.8k
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Answer: Answer: Specifying design in DESeqDataSetFromMatrix
21 months ago ATpoint ★ 4.8k
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2.0k
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Answer: Answer: package is not available for this version of R
21 months ago ATpoint ★ 4.8k
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Answer: Answer: Importing RSEM processed data already formatted as a summarized experiment into
22 months ago ATpoint ★ 4.8k
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1.7k
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Comment: Comment: Identify highly variable genes after vst
22 months ago ATpoint ★ 4.8k
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1.7k
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Answer: Answer: Identify highly variable genes after vst
22 months ago ATpoint ★ 4.8k
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2.2k
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Comment: Comment: how to remove batch effects of RNA seq data based on continuous variables(like s
22 months ago ATpoint ★ 4.8k
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Comment: Comment: 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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Answer: Answer: Error in SingleR, no common genes between 'test' and 'ref'
22 months ago ATpoint ★ 4.8k
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2
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1.7k
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Comment: Comment: DESeq2 design formula
22 months ago ATpoint ★ 4.8k
1,056 results • Page 8 of 22
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