Showing : edgeR • reset
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EdgeR User Guide. Analysis with multiple factors. Section 3.3.1
edger anova
updated 10.8 years ago by 53k • written 10.8 years ago by • 0
8
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17
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3.0k
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summarizing shRNA data per gene with edgeR
edgeR
updated 10.8 years ago by ★ 13k • written 10.8 years ago by • 0
5
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12
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8.7k
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Remove batch effect in small RNASeq study (SVA or others?)
RNASeq Alignment edgeR sva
updated 10.8 years ago by 53k • written 11.6 years ago by ★ 1.0k
3
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2
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11k
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Batch effect removal in edgeR
edger batch effect
updated 10.8 years ago by 53k • written 10.8 years ago by ▴ 50
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7
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7.9k
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EdgeR: glmLRT(), Multifactorial designs and correction for multiple testing
edgeR glmLRT() multiple factor design multiple testing correction
updated 10.9 years ago by ★ 29k • written 10.9 years ago by ▴ 80
5
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6
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proper transformation for differential expression in normalized log expression data
tcga rnaseq deseq2 vsn edger
updated 10.9 years ago by 53k • written 10.9 years ago by • 0
0
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2
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edgeR: Treatment effect at any time (UG3.3.3)
edgeR
updated 10.9 years ago by 53k • written 12.1 years ago by ▴ 20
1
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2
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FDR vs Permutation approach in edgeR
edger
updated 10.9 years ago by 53k • written 10.9 years ago by ▴ 60
9
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3
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9.0k
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Doubt about the "zero expression" genes or genes with no reads at all in the count matrix file
EDGER
10.9 years ago candida.vaz ▴ 50
0
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1
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edgeR: fold change reported by exactTest for zero values of rna-seq
edgeR
updated 10.9 years ago by 53k • written 11.8 years ago by ▴ 60
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0
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edgeR: fold change reported by exactTest for zero values of rna-seq
edgeR
11.8 years ago • updated 10.9 years ago Gordon Smyth 53k
2
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3
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2.4k
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edgeR paired test with batch effect
edger design and contrast matrix
updated 10.9 years ago by 53k • written 10.9 years ago by ▴ 60
2
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1
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3.8k
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RNA-seq: Batch-free expression values
edgeR limma removeBatchEffect()
updated 10.9 years ago by ★ 29k • written 10.9 years ago by ▴ 80
5
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4
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2.1k
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TreatDGE function usage
edger
10.9 years ago candida.vaz ▴ 50
1
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2
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1.9k
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edgeR design matrix question
edgeR limma rnaseq design and contrast matrix
updated 10.9 years ago by 53k • written 10.9 years ago by • 0
1
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4
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2.9k
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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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4
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2.6k
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edgeR uneven group sizes
edgeR
updated 10.9 years ago by 53k • written 12.4 years ago by ▴ 140
2
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8
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6.1k
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Repeated Measures mRNA expression analysis I
limma edgeR DESeq2
updated 10.9 years ago by 53k • written 12.4 years ago by ▴ 140
0
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7
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3.3k
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DESEQ ANODEV : A time course study
TimeCourse timecourse DESeq edgeR
updated 10.9 years ago by 53k • written 12.5 years ago by ▴ 20
7
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8
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6.9k
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Only one replicate: inferring dispersion from other group
deseq2 edger limma differential gene expression
updated 10.9 years ago by 53k • written 11.0 years ago by ▴ 30
6
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2
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help for designing a multifactorial GLM framework edgeR
edgeR GLM
updated 11.0 years ago by ★ 29k • written 11.0 years ago by • 0
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5
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edgeR and Normalization of RNAseq data using ERCC controls
edger ercc
11.0 years ago John ▴ 10
2
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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
2
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1
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1.9k
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calcNormFactors TMM vs RLE - plotMA not centered
normalization edger
updated 11.0 years ago by 53k • written 11.0 years ago by ▴ 310
3
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4
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3.0k
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edgeR: no replicates & mroast
edger roast
updated 11.0 years ago by 53k • written 11.0 years ago by ▴ 10
6
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6
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3.4k
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design matrix for 4 groups in edgeR
edger design
11.1 years ago • updated 11.0 years ago alakatos ▴ 130
3
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2
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17k
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how to calculate gene length to be used in rpkm() in edgeR
RNASeq edgeR rpkm
updated 2.6 years ago by 53k • written 11.6 years ago by ★ 1.0k
21
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13
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17k
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Obtaining Differentially expressed gene lists at a Fold change and FDR cut-off
edger rnaseq
updated 11.1 years ago by 68k • written 11.1 years ago by ▴ 50
3
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4
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Probem in defining the design matrix for RNA-Seq analysis with edgeR
edger design and contrast matrix rnaseq
updated 11.1 years ago by ★ 29k • written 11.1 years ago by ▴ 20
0
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3
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Comparisons both between and within subjects using DESeq2
deseq2 edger differentialexpression
11.1 years ago asaferali • 0
3
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2
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3.1k
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edgeR setting up glm/contrasts/ANOVA-like tests
edger rnaseq
updated 11.1 years ago by ★ 29k • written 11.1 years ago by ▴ 10
1
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2
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1.6k
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GLM design matrix not symmetric
edgeR
updated 11.1 years ago by 53k • written 11.8 years ago by ▴ 10
13
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11
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13k
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RNA-Seq, generate batch-free count matrix
edgeR sva
updated 11.1 years ago by 53k • written 11.4 years ago by ▴ 90
7
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11
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2.9k
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Using edgeR on pre-post treatment control design
edgeR complex-design
updated 11.1 years ago by 68k • written 11.1 years ago by ▴ 20
2
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3
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2.0k
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edgeR error in dispCoxReid - no data rows with required number of counts
edger rnaseq error
updated 11.1 years ago by 68k • written 11.1 years ago by • 0
0
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9
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3.2k
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Multifactor analysis in EdgeR and DESeq2 - help setting up similar contrasts in the two packages
edger deseq2 rnaseq
11.1 years ago CT • 0
3
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1
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1.0k
views
How to use dispersion estimated from one dataset in another dataset in EdgeR
edger
updated 11.1 years ago by ★ 29k • written 11.1 years ago by ▴ 20
21
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1
reply
8.9k
views
Differences between limma voom E values and edgeR cpm values?
edgeR
updated 11.2 years ago by 53k • written 11.5 years ago by ▴ 90
1
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2
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3.5k
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The difference between three methods in calcNormFacotors() in edgeR
Normalization edgeR
updated 11.2 years ago by 53k • written 11.4 years ago by ▴ 40
1
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1
reply
2.3k
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Question about decideTestsDGE()
Genetics edgeR
updated 11.2 years ago by 53k • written 11.3 years ago by ▴ 270
12
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13
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9.3k
views
EdgeR Differential Expression analysis with NAs
EdgeR rnaseq NA
updated 11.2 years ago by ★ 29k • written 11.2 years ago by • 0
0
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5
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2.5k
views
Tissue heterogeneity and TMM normalization
Normalization edgeR
updated 11.2 years ago by ★ 13k • written 11.2 years ago by ▴ 30
0
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10
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2.5k
views
Interspecies differential expression of orthologs with Edger
Normalization Organism edgeR
updated 11.2 years ago by ▴ 140 • written 11.2 years ago by 53k
0
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3
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1.8k
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edgeR: mixing technical replicates from Illumina HiSeq and MiSeq
Sequencing Alignment GO edgeR DESeq2
updated 11.2 years ago by ★ 7.9k • written 11.2 years ago by ▴ 60
0
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8
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2.0k
views
edgeR factorial experiment contrasts
edgeR
updated 11.2 years ago by 68k • written 11.2 years ago by ★ 13k
0
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6
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1.8k
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edgeR contrast
edgeR
updated 11.2 years ago by 68k • written 11.2 years ago by ★ 13k
0
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2
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1.5k
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Interspecies differential expression of orthologs with Edger
RNASeq Normalization Organism zebrafish edgeR
updated 11.2 years ago by 53k • written 11.2 years ago by ▴ 140
0
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1
reply
1.2k
views
Model Design
limma edgeR
updated 11.2 years ago by ▴ 10 • written 11.2 years ago by 68k
0
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0
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1.5k
views
edgeR: mixing technical replicates from Illumina HiSeq and MiSeq
Sequencing Alignment GO edgeR DESeq2 Sequencing Alignment GO edgeR DESeq2
11.2 years ago Gordon Smyth 53k
0
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1
reply
1.3k
views
edgeR: mixing technical replicates from Illumina HiSeq and MiSeq
Sequencing edgeR DESeq2 Sequencing edgeR DESeq2
updated 11.2 years ago by ★ 7.9k • written 11.2 years ago by ▴ 320
2,031 results • Page 29 of 41
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