Showing : deseq • reset
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Fwd: DESeq plotting graphs.
Cancer DESeq Cancer DESeq
13.0 years ago Steve Lianoglou ★ 13k
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RNAseq object
RNASeq DESeq easyRNASeq RNASeq DESeq easyRNASeq
updated 13.0 years ago by ★ 4.2k • written 13.0 years ago by ★ 13k
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Differential expression analysis of CAGE data
Transcription Annotation convert edgeR DESeq Transcription Annotation convert edgeR DESeq
updated 13.0 years ago by ★ 13k • written 13.0 years ago by ▴ 30
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DESeq cuont table normalization
Normalization DESeq Normalization DESeq
updated 13.0 years ago by ★ 13k • written 13.0 years ago by ▴ 260
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DESeq - Estimating Dispersion with Technical Replicates
GLAD DESeq GLAD DESeq
updated 13.1 years ago by ★ 13k • written 13.1 years ago by ▴ 20
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DESeq error
DESeq DESeq
updated 13.1 years ago by ★ 3.8k • written 13.1 years ago by ▴ 50
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DESeq - working with more than 2 conditions
DESeq DESeq
updated 13.1 years ago by ★ 13k • written 13.1 years ago by ▴ 140
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4
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Estimating Size Factors in DESeq Package
DESeq DESeq
updated 13.1 years ago by ★ 3.8k • written 13.1 years ago by ▴ 20
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DESeq Fold-Change calculation
DESeq DESeq
updated 13.1 years ago by ★ 3.8k • written 13.1 years ago by ★ 1.3k
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RNA-seq analysis and two-way ANOVAs
edgeR baySeq DEGseq DESeq DEXSeq edgeR baySeq DEGseq DESeq DEXSeq
updated 13.1 years ago by 53k • written 13.1 years ago by ▴ 160
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how to set parameter of DESeq function estimateDispersions
DESeq DESeq
13.1 years ago wang peter ★ 2.0k
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1.5k
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deseq within and between group variation
DESeq DESeq
updated 13.2 years ago by ★ 3.8k • written 13.2 years ago by ▴ 60
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DESeq normalization
Normalization DESeq Normalization DESeq
13.2 years ago sudeep s ▴ 60
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5
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2.9k
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EasyRNASeq issue (missing bai files)
GO PROcess DESeq easyRNASeq GO PROcess DESeq easyRNASeq
updated 13.2 years ago by ▴ 10 • written 13.2 years ago by ★ 1.2k
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how to design model in DESeq
DESeq DESeq
13.2 years ago wang peter ★ 2.0k
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776
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FW: Reproducibility in DESeq
convert DESeq convert DESeq
13.2 years ago Fatemehsadat Seyednasrollah ▴ 260
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1.2k
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DESeq installation problems
DESeq BiocInstaller DESeq BiocInstaller
updated 13.2 years ago by ★ 8.2k • written 13.2 years ago by ▴ 10
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how to get normalized counts from edgeR
DESeq DESeq
updated 13.2 years ago by ▴ 880 • written 13.2 years ago by ★ 2.0k
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easyRNAseq question
Category DESeq easyRNASeq Category DESeq easyRNASeq
updated 13.2 years ago by ★ 13k • written 13.3 years ago by ▴ 190
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down-expression and high-expression in single cell + amplification
DESeq DESeq
13.2 years ago Dror Hibsh ▴ 40
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880
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Very Different group sizes in DE of two conditions
miRNA Cancer edgeR DESeq miRNA Cancer edgeR DESeq
updated 13.3 years ago by 53k • written 13.3 years ago by ★ 13k
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DESeq analysis
edgeR DESeq edgeR DESeq
updated 13.3 years ago by ★ 13k • written 13.3 years ago by ▴ 260
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Differential gene expression: EdgeR / DESeq and identifying noise/outliers
Sequencing edgeR DESeq Sequencing edgeR DESeq
13.3 years ago Gordon Smyth 53k
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FW: DESeq analysis
edgeR DESeq edgeR DESeq
13.3 years ago Fatemehsadat Seyednasrollah ▴ 260
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Differential gene expression: EdgeR / DESeq and identifying noise/outliers
Sequencing edgeR DESeq Sequencing edgeR DESeq
13.3 years ago Michael Salbaum ▴ 80
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1.4k
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pvalue and padj in DESeq
DESeq DESeq
updated 13.3 years ago by ★ 3.8k • written 13.3 years ago by ★ 13k
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1.9k
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DESeq analysis
DESeq DESeq
updated 13.3 years ago by ★ 13k • written 13.3 years ago by ★ 13k
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1.0k
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interactions between variables in DEXSeq
DESeq DESeq
updated 13.3 years ago by ★ 1.9k • written 13.3 years ago by ▴ 160
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estimateDispersions in DESeq
Genetics graph DESeq Genetics graph DESeq
updated 13.3 years ago by ★ 13k • written 13.3 years ago by ▴ 10
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DESeq and contrasts
DESeq DESeq
updated 13.3 years ago by 53k • written 13.3 years ago by ▴ 20
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965
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RnaSeqTutorial Package
Annotation BSgenome BSgenome DESeq DEXSeq Annotation BSgenome BSgenome DESeq DEXSeq
updated 13.3 years ago by ★ 13k • written 13.3 years ago by ★ 13k
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5
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1.5k
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down-expression and high-expression in single cell + amplification
DESeq DESeq
updated 13.3 years ago by ★ 4.2k • written 13.3 years ago by ★ 13k
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1.3k
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paired analysis in RNA Seq data using DESeq
RNASeq edgeR DESeq RNASeq edgeR DESeq
13.3 years ago Natasha ▴ 440
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3.8k
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voom() vs. RPKM/FPKM or otherwise normalized counts, and GC correction, when fitting models to a small number of responses (per-feature counts)
Normalization graph limma convert edgeR DESeq Rsubread Normalization graph limma convert
updated 2.8 years ago by 53k • written 13.3 years ago by ★ 6.5k
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DESeq estimateDispersions() problem
DESeq DESeq
updated 13.3 years ago by ★ 13k • written 13.3 years ago by ★ 1.2k
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DESeq estimateDispersions() problem
DESeq DESeq
13.4 years ago Karl Lundén ▴ 20
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820
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DESeq error thrown during estimateDispersions w/ coxReid method
DESeq DEXSeq DESeq DEXSeq
13.4 years ago Simon Anders ★ 3.8k
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DESeq error with glm.fit during estimateDispersions
DESeq DESeq
updated 13.4 years ago by ★ 3.8k • written 13.4 years ago by ▴ 210
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How to use DESeq output to convert raw counts to normalized data
convert DESeq convert DESeq
updated 13.4 years ago by ★ 3.8k • written 13.4 years ago by ▴ 30
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How to use DESeq to normalize and estimate variance in a RNAseq timecourse analysis
Normalization DESeq Normalization DESeq
updated 13.4 years ago by ★ 13k • written 13.4 years ago by ▴ 50
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DESeq Package Questions
Network edgeR DESeq Network edgeR DESeq
13.4 years ago Xin Davis ▴ 30
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2
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2.3k
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DESeq
DESeq DESeq
updated 13.4 years ago by ★ 13k • written 13.4 years ago by ▴ 440
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12
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3.1k
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problem with loading DESeq after upgrading from R 2.14 to R 2.15
GUI DESeq DEXSeq GUI DESeq DEXSeq
updated 13.5 years ago by ▴ 60 • written 13.5 years ago by ▴ 370
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808
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回复： TMM factors
Normalization edgeR DESeq Normalization edgeR DESeq
13.5 years ago Mark Robinson ▴ 880
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1.3k
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DESeq without replicates, Problem trying to obtain significant hits
DESeq DESeq
13.5 years ago Asma ▴ 10
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1
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2.3k
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DeSeq - How to get the Biological Coefficient of Variation
edgeR DESeq edgeR DESeq
updated 13.5 years ago by ★ 3.8k • written 13.5 years ago by ▴ 50
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2.9k
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error in dispersion estimate
DESeq DESeq
13.5 years ago mariangela bonizzoni ▴ 20
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6
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1.7k
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Genominator error when calling syste.time
Genominator DESeq Genominator DESeq
updated 13.5 years ago by ★ 6.5k • written 13.5 years ago by ▴ 200
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1.5k
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question about DESeq or tissue-specific expression
DESeq DESeq
updated 13.5 years ago by ★ 13k • written 13.5 years ago by ▴ 450
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1
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780
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Checking output of DESeq package analysis
DESeq DESeq
updated 13.5 years ago by ★ 3.8k • written 13.5 years ago by ★ 13k
512 results • Page 8 of 11
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Comment: R course in Boston December 19-20 by eja.gaasa2e.r.m • 0
The upcoming XLSolutions R course in Boston on December 19 20 is a great opportunity to enhance your data skills. Whether you re a beginner…
Answer: Gatins Set error by James W. MacDonald 68k
`GatingSet` isn't a function in `flowCore`. It is however in `flowWorkspace`, which you would need to load first.
Answer: How to model DE for RNA-seq in concordant monozygotic twins? by Gordon Smyth 53k
Your question is more about science than it is about software syntax, and I can't give advice about how to conduct a scientific analysis, n…
Comment: incomplete imputation of missing values with LEA impute() function by Gordon Smyth 53k
Nadia, please tag your question with the name of the package ("LEA") that you are asking about. "impute" is the name of a different Biocond…
Comment: Sharing a collection of datasets in ExperimentHub by Aaron Lun ★ 29k
FYI the **scRNAseq** packages uses a non-ExperimentHub storage platform, see [here](https://github.com/ArtifactDB/gypsum-worker) for more d…
Votes
Comment: incomplete imputation of missing values with LEA impute() function
Answer: Expected memory usage for analyzing large single-cell seq datasets (> 450,000 ce
Answer: ordinary t from limma [was: How would I normally compare swirl?]
Comment: readDNAStringSet with non DNA characters
Comment: Guidance on limma for pseudobulk scRNA-seq with multi-factor design
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