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Comment: C: DESeq2 normalisation: is the size of the gene taken into account?
9.1 years ago by Michael Love ★ 2.6k
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3.3k
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Answer: A: DESeq2 with 2 factors: problem to fit the negative binomial and weird p-value di
9.1 years ago by Michael Love ★ 2.6k
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12k
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Answer: A: DESeq2 normalisation: is the size of the gene taken into account?
9.1 years ago by Michael Love ★ 2.6k
0
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1
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3.9k
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Comment: Comment: DESeq2: invalid class “GRangesList” object
updated 2.0 years ago by 43k • written 9.2 years ago by ★ 2.6k
1
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3.9k
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Answer: Answer: DESeq2: invalid class “GRangesList” object
updated 2.0 years ago by 43k • written 9.2 years ago by ★ 2.6k
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Comment: C: RSEM Downstream Analysis
9.2 years ago by Michael Love ★ 2.6k
2
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1
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7.1k
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Comment: C: RSEM Downstream Analysis
9.2 years ago by Michael Love ★ 2.6k
2
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1
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4.3k
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Answer: Answer: [DESeq2] Little Error in seq_len(nrow(modelMatrix)) while starting DESeq()
updated 2.1 years ago by 43k • written 9.2 years ago by ★ 2.6k
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0
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2.9k
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Comment: Comment: Correlated standard errors in DESeq2
updated 2.1 years ago by 43k • written 9.2 years ago by ★ 2.6k
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Answer: Answer: Can someone please explain in simple terms how DESeq2 works?
updated 2.1 years ago by 43k • written 9.3 years ago by ★ 2.6k
2
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1
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7.7k
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Answer: Answer: same padj for all the genes after DEseq analysis
updated 2.2 years ago by 43k • written 9.5 years ago by ★ 2.6k
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0
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Comment: Comment: DESeq2 Design Clarification
updated 2.2 years ago by 43k • written 9.5 years ago by ★ 2.6k
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1
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6.1k
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Comment: Comment: DESeq2 Design Clarification
updated 2.2 years ago by 43k • written 9.5 years ago by ★ 2.6k
4
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1
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3.5k
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Answer: Answer: DESeq sample organization
updated 2.2 years ago by 43k • written 9.5 years ago by ★ 2.6k
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0
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6.3k
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Comment: Comment: Error when counting reads in genes with summarizeOverlaps (Genomic-Alignments pa
updated 2.3 years ago by 43k • written 9.5 years ago by ★ 2.6k
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0
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4.1k
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Answer: Answer: comparing each time point with deseq2 and their results
updated 2.3 years ago by 43k • written 9.5 years ago by ★ 2.6k
3
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1
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11k
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Answer: A: DESEq2 warning while using GLM fitting
9.5 years ago by Michael Love ★ 2.6k
1
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0
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6.9k
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Comment: Comment: Problem is to design model matrix for edgeR
updated 2.3 years ago by 43k • written 9.5 years ago by ★ 2.6k
3
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0
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1.7k
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Answer: Answer: Why 2000 out of 7000 genes are not calculated?
updated 3.1 years ago by 43k • written 9.6 years ago by ★ 2.6k
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0
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Comment: Comment: DESeq2 : foldchange calculation with multi-factor design
updated 3.1 years ago by 43k • written 9.6 years ago by ★ 2.6k
2
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1
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5.4k
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Answer: Answer: DESeq2 : foldchange calculation with multi-factor design
updated 3.1 years ago by 43k • written 9.6 years ago by ★ 2.6k
3
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0
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6.5k
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Comment: Comment: edgeR / deSeq parallel usage
updated 2.4 years ago by 43k • written 9.7 years ago by ★ 2.6k
6
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1
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13k
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Answer: Answer: What exactly means the Dispersion Plot DESeq2?
updated 2.4 years ago by 43k • written 9.7 years ago by ★ 2.6k
5
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1
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6.5k
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Answer: Answer: edgeR / deSeq parallel usage
updated 2.4 years ago by 43k • written 9.7 years ago by ★ 2.6k
3
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1
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4.1k
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Answer: Answer: [DESeq2 multiple treatments vs. 1-by-1] Inconsistant p-adj
updated 2.4 years ago by 43k • written 9.7 years ago by ★ 2.6k
2
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0
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7.5k
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Answer: Answer: deseq2 how to define data.frame with multiple treatments and multiple replicates
updated 2.4 years ago by 43k • written 9.8 years ago by ★ 2.6k
1
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0
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7.4k
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Comment: Comment: estimation of size factors in DESeq2 analysis
updated 2.5 years ago by 43k • written 9.9 years ago by ★ 2.6k
3
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1
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7.4k
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Answer: Answer: estimation of size factors in DESeq2 analysis
updated 2.5 years ago by 43k • written 9.9 years ago by ★ 2.6k
1
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0
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7.6k
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Comment: C: Deseq's plotMA color-coding at random?
9.9 years ago by Michael Love ★ 2.6k
0
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1
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6.1k
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Comment: C: Reviewing a MOOC: HarvardX - PH525x Data Analysis for Genomics
9.9 years ago by Michael Love ★ 2.6k
1
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0
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9.0k
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Answer: A: Statistical analysis mutliple groups of RNA Seq data
10.0 years ago by Michael Love ★ 2.6k
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