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Comment: Comment: insufficient unique points for computing knee/inflection points
11 months ago ATpoint ★ 4.2k
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842
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Comment: Comment: Adding a group of samples reduces DEGs in other groups
11 months ago ATpoint ★ 4.2k
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664
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Comment: Comment: DESeq differential expression results are too stringet. How to relax my criteria
11 months ago ATpoint ★ 4.2k
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664
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Answer: Answer: DESeq differential expression results are too stringet. How to relax my criteria
11 months ago ATpoint ★ 4.2k
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1.2k
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Answer: Answer: Same few genes repeated in DESeq2 Results
11 months ago ATpoint ★ 4.2k
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1.2k
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Comment: Comment: Same few genes repeated in DESeq2 Results
11 months ago ATpoint ★ 4.2k
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1.2k
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Comment: Comment: Same few genes repeated in DESeq2 Results
11 months ago ATpoint ★ 4.2k
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2
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877
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Comment: Comment: DESeq2 analysis
11 months ago ATpoint ★ 4.2k
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2.8k
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Answer: Answer: vmatchPattern on DNAstring set
11 months ago ATpoint ★ 4.2k
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877
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Answer: Answer: DESeq2 analysis
11 months ago ATpoint ★ 4.2k
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2.7k
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Answer: Answer: Warning messages in detecting P-values
11 months ago ATpoint ★ 4.2k
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855
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Comment: Comment: Applicability of AUCell to bulk RNA-seq
11 months ago ATpoint ★ 4.2k
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1.5k
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Comment: Comment: RNA seq differential expression analysis for large sample size
11 months ago ATpoint ★ 4.2k
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3.7k
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Comment: Comment: diffbind
11 months ago ATpoint ★ 4.2k
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1.5k
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Answer: Answer: RNA seq differential expression analysis for large sample size
11 months ago ATpoint ★ 4.2k
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568
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Answer: Answer: Affymetrix hgu133plus2.db: How to best derive an expression value for genes that
11 months ago ATpoint ★ 4.2k
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450
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Answer: Answer: Building Multifactor Model in DESeq2
11 months ago ATpoint ★ 4.2k
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536
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Answer: Answer: Read methylation data from tar files on GEO (GSE73303)
11 months ago ATpoint ★ 4.2k
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1.5k
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Answer: Answer: Unable to install DESeq2
11 months ago ATpoint ★ 4.2k
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748
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Answer: Answer: Correct DESeq2 design for tumoral stage differences in tumoral and matched-norma
11 months ago ATpoint ★ 4.2k
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583
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Comment: Comment: I changed the reference in DGE contrasts by DESeq2, but the results changed just
11 months ago ATpoint ★ 4.2k
2
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504
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Answer: Answer: For limma, if I leave coef=NULL, which test is the P value for?
11 months ago ATpoint ★ 4.2k
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1.1k
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Comment: Comment: Reading data into chromVAR
11 months ago ATpoint ★ 4.2k
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627
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Comment: Comment: Pairwise comparison for DEG analysis
11 months ago ATpoint ★ 4.2k
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464
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Answer: Answer: DGE analysis for diseased samples through DESeq2 and Ballgown
11 months ago ATpoint ★ 4.2k
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731
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Comment: Comment: lfc direction of effect flipped for ashr, apeGLM, but accurate to biological dat
11 months ago ATpoint ★ 4.2k
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0
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684
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Answer: Answer: Specifying design in DESeqDataSetFromMatrix
11 months ago ATpoint ★ 4.2k
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1.5k
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Answer: Answer: package is not available for this version of R
11 months ago ATpoint ★ 4.2k
2
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3
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1.3k
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Answer: Answer: Importing RSEM processed data already formatted as a summarized experiment into
11 months ago ATpoint ★ 4.2k
1
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0
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866
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Comment: Comment: Identify highly variable genes after vst
11 months ago ATpoint ★ 4.2k
1
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1
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866
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Answer: Answer: Identify highly variable genes after vst
11 months ago ATpoint ★ 4.2k
1
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1
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1.1k
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Comment: Comment: how to remove batch effects of RNA seq data based on continuous variables(like s
12 months ago ATpoint ★ 4.2k
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1.3k
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Comment: Comment: PCA for QC should include subset of top variable genes or full set of genes in R
12 months ago ATpoint ★ 4.2k
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1
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1.0k
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Answer: Answer: Error in SingleR, no common genes between 'test' and 'ref'
12 months ago ATpoint ★ 4.2k
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2
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911
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Comment: Comment: DESeq2 design formula
12 months ago ATpoint ★ 4.2k
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528
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Answer: Answer: really low padj value from DESeq2
12 months ago ATpoint ★ 4.2k
2
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1.3k
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Answer: Answer: PCA for QC should include subset of top variable genes or full set of genes in R
12 months ago ATpoint ★ 4.2k
0
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0
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660
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Comment: Comment: Normalization of different input materials
12 months ago ATpoint ★ 4.2k
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0
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661
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Answer: Answer: DESEQ2 differential expression for subsets of data?
12 months ago ATpoint ★ 4.2k
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1.6k
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Comment: Comment: Choosing between VST and rlog for PCA for outlier identification in DESeq2 when
12 months ago ATpoint ★ 4.2k
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0
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545
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Answer: Answer: plotCounts label each sample
12 months ago ATpoint ★ 4.2k
0
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1
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1.6k
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Comment: Comment: Choosing between VST and rlog for PCA for outlier identification in DESeq2 when
12 months ago ATpoint ★ 4.2k
0
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1
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1.1k
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Answer: Answer: What GENCODE GFF file for calculating exon length for TPM
12 months ago ATpoint ★ 4.2k
0
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1
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785
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Comment: Comment: fastMNN reproducibility across machines when using Docker
12 months ago ATpoint ★ 4.2k
0
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1
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660
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Answer: Answer: Normalization of different input materials
12 months ago ATpoint ★ 4.2k
1
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0
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534
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Answer: Answer: WGCNA Cluster batch effect
12 months ago ATpoint ★ 4.2k
0
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0
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733
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Comment: Comment: DESeq2 package unrecognized after downloading latest version of R: keep getting
12 months ago ATpoint ★ 4.2k
0
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1
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706
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Answer: Answer: limma paired design
12 months ago ATpoint ★ 4.2k
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1
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933
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Answer: Answer: runPCA in a SingleCellExperiment results ina colMeans error
12 months ago ATpoint ★ 4.2k
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704
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Answer: Answer: Hub genes selection in WGCNA
12 months ago ATpoint ★ 4.2k
943 results • Page 6 of 19
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