Showing : deseq • reset
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Recommended gene model for DESeq
DESeq DESeq
updated 13.5 years ago by ★ 3.8k • written 13.5 years ago by ▴ 30
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1
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1.5k
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counts vs exprs
DESeq DESeq
updated 13.5 years ago by ★ 13k • written 13.5 years ago by ▴ 230
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DESeq countDataSets and arrayQualityMetrics (was: Re: DESeq estimateDispersion options for lower depth miRNA-seq)
Genetics Biobase arrayQualityMetrics DESeq Genetics Biobase arrayQualityMetrics DESeq
13.5 years ago Wolfgang Huber ★ 13k
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edgeR-DeSeq - inconsistency between Variance and Coefficient of Variation
Regression edgeR DESeq Regression edgeR DESeq
13.5 years ago Gordon Smyth 53k
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1.5k
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edgeR-DeSeq - inconsistency between Variance and Coefficient of Variation?
edgeR DESeq edgeR DESeq
13.5 years ago Miguel Gallach ▴ 50
0
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1
reply
1.3k
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DESeq estimateDispersion options for lower depth miRNA-seq
Genetics arrayQualityMetrics DESeq Genetics arrayQualityMetrics DESeq
updated 13.5 years ago by ★ 13k • written 13.5 years ago by ▴ 50
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13
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7.8k
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Up & Downregulated genes using DESeq
DESeq DESeq
updated 13.5 years ago by ▴ 80 • written 13.5 years ago by ▴ 40
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0
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2.2k
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DESeq for two-factor models
GO DESeq GO DESeq
13.5 years ago Henning Wildhagen ▴ 30
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2
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1.0k
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Updating Package Versions from SVN
DESeq DESeq
updated 13.5 years ago by 68k • written 13.5 years ago by ▴ 210
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1
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1.1k
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DESeq estimateDispersion options for lower depth miRNA-seq
Sequencing miRNA DESeq Sequencing miRNA DESeq
updated 13.5 years ago by ★ 13k • written 13.5 years ago by ▴ 50
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2
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3.1k
views
DESeq vs DEXSeq
RNASeq Annotation DESeq DEXSeq RNASeq Annotation DESeq DEXSeq
updated 13.5 years ago by ★ 3.8k • written 13.5 years ago by ▴ 280
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1
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1.9k
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DeSeq Volcano plot- error
RNASeq DESeq RNASeq DESeq
updated 13.5 years ago by ★ 13k • written 13.5 years ago by ▴ 30
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3
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DESeq multi-factor export results
DESeq DESeq
updated 13.5 years ago by ★ 3.8k • written 13.5 years ago by ▴ 40
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2
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1.5k
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DESeq Question
DESeq DESeq
updated 13.5 years ago by ★ 3.8k • written 13.5 years ago by ▴ 40
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3
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1.5k
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edgeR i get 377 significant genes where in DESeq i got 0
edgeR DESeq edgeR DESeq
updated 13.6 years ago by 53k • written 13.6 years ago by ★ 13k
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1
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1.1k
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DESeq without replicates, Problem trying to obtain significant hits
DESeq DESeq
updated 13.6 years ago by ★ 3.8k • written 13.6 years ago by ▴ 30
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3
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1.0k
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Newer version of DESeq give much small list of DE genes
DESeq DESeq
updated 13.6 years ago by ▴ 410 • written 13.6 years ago by ▴ 30
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1
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1.5k
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Checking RNAseq DESeq pipeline
Sequencing PROcess DESeq Sequencing PROcess DESeq
updated 13.6 years ago by ★ 13k • written 13.6 years ago by ▴ 280
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10
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1.9k
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re incomplete analysis in Deseq
DESeq DESeq
updated 13.6 years ago by ★ 13k • written 13.6 years ago by ★ 13k
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1
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1.0k
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Standard error and confidence intervals in DESeq?
Genetics DESeq Genetics DESeq
updated 13.6 years ago by ★ 13k • written 13.6 years ago by ▴ 190
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1
reply
2.0k
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Volcano plot
Sequencing DESeq Sequencing DESeq
updated 13.6 years ago by ★ 13k • written 13.6 years ago by ▴ 30
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1
reply
1.2k
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Installation errors for DESeq, Genomic Ranges etc.
rtracklayer DESeq GenomicRanges BiocInstaller rtracklayer DESeq GenomicRanges BiocInstaller
updated 13.6 years ago by 25k • written 13.6 years ago by ▴ 220
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1
reply
940
views
how to update DEseq package on windows?
DESeq DESeq
updated 13.6 years ago by ★ 1.2k • written 13.6 years ago by ★ 2.0k
0
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1
reply
727
views
DESeq dispersions for series
DESeq DESeq
updated 13.6 years ago by ★ 13k • written 13.6 years ago by ▴ 10
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6
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7.6k
views
DeSeq vs current version of Cuffdiff
Sequencing Bayesian Cancer DESeq Sequencing Bayesian Cancer DESeq
updated 13.6 years ago by ▴ 290 • written 13.6 years ago by ★ 2.0k
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using easyRNASeq examples
RNASeq Annotation BSgenome convert biomaRt BSgenome IRanges DESeq easyRNASeq RNASeq
13.6 years ago delhomme@embl.de ★ 1.2k
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1
reply
960
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about library size and length of gene information in DEseq
edgeR DESeq edgeR DESeq
updated 13.7 years ago by ★ 13k • written 13.7 years ago by ★ 2.0k
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8
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4.4k
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DESeq and transcript-wise analysis
convert DESeq convert DESeq
13.7 years ago Elena Sorokin ▴ 160
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7
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1.8k
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package to count read prior to DESeq?
DESeq DESeq
updated 13.7 years ago by ★ 3.6k • written 13.7 years ago by ▴ 280
3
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5
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2.9k
views
DESeq on transcripts v/s genes
DESeq DESeq
updated 13.7 years ago by ★ 13k • written 13.7 years ago by ▴ 410
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0
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BaseCounts & edgeR
limma edgeR DESeq limma edgeR DESeq
13.7 years ago Gordon Smyth 53k
0
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0
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823
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DESeq estimateDispersion query
DESeq DESeq
13.7 years ago Michal Okoniewski ▴ 190
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1
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1.1k
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DESeq - ChIP-seq (including background reads)
DESeq DESeq
updated 13.7 years ago by ▴ 70 • written 13.7 years ago by ▴ 70
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0
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1.1k
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BaseCounts & edgeR
edgeR DESeq edgeR DESeq
13.7 years ago Marco Groth ▴ 10
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1.3k
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DESeq estimateDispersion query
GO edgeR DESeq GO edgeR DESeq
13.7 years ago Iain Gallagher ▴ 930
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1
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1.1k
views
DESeq: how to get the variance information
DESeq DESeq
updated 13.7 years ago by ★ 3.8k • written 13.7 years ago by ▴ 60
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1
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907
views
DESeq mean,var
RNASeq GO DESeq RNASeq GO DESeq
updated 13.7 years ago by ★ 13k • written 13.7 years ago by ▴ 50
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3
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2.6k
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DESeq for an mRNA-seq time course
DESeq DESeq
13.8 years ago Elena Sorokin ▴ 160
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8
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2.5k
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Fwd: differential binding question
edgeR DESeq edgeR DESeq
updated 13.8 years ago by ▴ 100 • written 13.8 years ago by ▴ 370
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0
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1.8k
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normalizing time course RNA-Seq data
Normalization edgeR DESeq Normalization edgeR DESeq
13.8 years ago Mark Robinson ▴ 880
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0
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766
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residual variances in Deseq packages
DESeq DESeq
13.8 years ago Hubert Rehrauer ▴ 100
0
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3
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1.6k
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DESeq variance question
edgeR DESeq edgeR DESeq
updated 13.8 years ago by 53k • written 13.8 years ago by ▴ 10
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0
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1.1k
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edgeR - R script - results compared to DESeq
GLAD edgeR DESeq GLAD edgeR DESeq
13.8 years ago Gordon Smyth 53k
0
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5
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2.2k
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edgeR - R script - results compared to DESeq
edgeR DESeq edgeR DESeq
updated 13.9 years ago by ▴ 40 • written 13.9 years ago by ▴ 40
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1
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1.4k
views
DESeq gene names under id
DESeq DESeq
updated 13.9 years ago by ★ 3.8k • written 13.9 years ago by ▴ 20
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4
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8.7k
views
DESeq adjusted pvalue calculation / filtering data
Sequencing Organism qvalue DESeq Sequencing Organism qvalue DESeq
updated 13.9 years ago by ★ 6.0k • written 13.9 years ago by ▴ 20
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2
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1.7k
views
Block x Treatment interaction test with DeSeq
DESeq DESeq
updated 13.9 years ago by ★ 3.8k • written 13.9 years ago by ▴ 10
0
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1
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1.2k
views
DESeq Error: pobs == ps[kAs[i] + 1] is not TRUE
DESeq DESeq
updated 13.9 years ago by ★ 3.8k • written 13.9 years ago by ★ 3.4k
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1
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2.6k
views
TMM and calcNormFactors: Normalization in baySeq to match edgeR and DESeq
Normalization Bayesian edgeR baySeq DESeq Normalization Bayesian edgeR baySeq DESeq
updated 13.9 years ago by ▴ 40 • written 13.9 years ago by 53k
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0
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1.3k
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TMM and calcNormFactors: Normalization in baySeq to match, edgeR and DESeq (Smith, Hilary A)
Normalization edgeR baySeq DESeq Normalization edgeR baySeq DESeq
13.9 years ago Thomas J Hardcastle ▴ 180
512 results • Page 9 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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