Showing : RNA-Seq • reset
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DESeq2 Log2 Fold Change values do not match up between my Rank List and my MA Plot
deseq2 rna-seq
updated 10.4 years ago by ★ 1.6k • written 10.4 years ago by • 0
8
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6.6k
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interpreting LRT results DESeq2
deseq2 LRT RNA-Seq
updated 10.7 years ago by 43k • written 10.7 years ago by ▴ 90
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14
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11k
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DESeq Error in round(assay(se)) : non-numeric argument to mathematical function
deseq rna-seq
10.7 years ago rodriguez.varenka • 0
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tuning memory consumption of summarizeOverlaps?
rna-seq summarizeoverlaps
updated 10.7 years ago by ★ 6.8k • written 10.7 years ago by 6.7k
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Need advice on normalization of SMART-amplified RNA-Seq data
normalization rna-seq deseq2 edger smart
updated 10.7 years ago by ★ 7.9k • written 10.7 years ago by ▴ 270
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3
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Find DEG from RNA-seq: What if have only RPKM data?
deg rna-seq rpkm
updated 10.7 years ago by ▴ 370 • written 10.7 years ago by • 0
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1.7k
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News: Course Announcement: Use R / Bioconductor for Sequence Analysis (Intermediate Course)
Course RNA-Seq Chip-seq Parallel News
10.7 years ago Martin Morgan 25k
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2
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Deconvolution RNA-Seq data
rna-seq differential expression
updated 10.7 years ago by 68k • written 10.7 years ago by ▴ 10
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1.7k
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meta-analysis of RNA-seq data
deseq2 rna-seq
10.8 years ago anpham ▴ 70
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1.8k
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News: An introductory course to RNA-seq 17-19 March 2015
rna-seq course News
10.8 years ago rcaloger ▴ 500
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RNA-seq bacterial transcriptome analysis in EdgeR with unusual dispersion trend
RNA-seq edgeR estimatedispersions bacteria
10.8 years ago Mauve • 0
2
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5
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2.8k
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RNA-Seq analysis edgeR
edgeR rna-seq replicates
updated 10.8 years ago by 68k • written 10.8 years ago by • 0
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3
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Redundant meta-features (genes) using FeatureCounts
rna-seq featurecounts
10.9 years ago ccheung • 0
14
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9
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How does DESeq2 handle zero counts in one condition?
deseq2 deseq rna-seq
10.9 years ago gavrielmatt ▴ 30
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4.3k
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WGCNA - signedKME function
WGCNA RNA-seq signedKME
updated 10.9 years ago by ★ 3.0k • written 10.9 years ago by ▴ 10
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How to set the contrast in case of a design of 2 level factor and interaction term.
deseq2 deseq rna-seq
11.0 years ago • updated 10.9 years ago solgakar@bi.technion.ac.il ▴ 90
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strange FDR distribution for RNA-seq sample with edgeR
edgeR RNA-seq FDR
updated 10.9 years ago by 53k • written 10.9 years ago by ▴ 10
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2
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Should I calculate normalization factors in edgeR using all libraries or using only the compared libraries?
edgeR calcNormFactors RNA-seq
updated 11.0 years ago by ★ 29k • written 11.0 years ago by • 0
418 results • Page 9 of 9
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Comment: Large logFC but somewhat high FDR by Gordon Smyth 53k
I don't know what `tp1` is. The relevant histogram would be: ``` hist(fit2$p.value[,"KO_vs_WT"]) ```
Answer: p.adjust BH Question by Gordon Smyth 53k
Duplicate of https://support.bioconductor.org/p/41077/
Answer: Large logFC but somewhat high FDR by Gordon Smyth 53k
Glad you're getting good use out of the package. The results that you show seem pretty much as one would expect, with nothing surprising. …
Comment: After running samtools, the featureCounts command crashed. by MarcHintz99 • 0
Thanks for shairng https://subread.sourceforge.net/
Comment: Senior Teaching Fellow (MSc Computational Biomedicine) by eja.ger.m • 0
Opportunities like this remind me how digital learning is evolving, much like modern mobile games. With programmes becoming fully online an…
Votes
Comment: upstream git branches of bioc-release
A: p.adjust BH generates duplicate values
Answer: gene Set with high AUC score but no cells assigned to cell type
Answer: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
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