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base of B-value log in Limma
Cancer limma Cancer limma
updated 6.8 years ago by 50k • written 18.0 years ago by ★ 2.0k
0
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0
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1.5k
views
fdr cutoff
Cancer Cancer
10.6 years ago Richard Friedman ★ 2.0k
0
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3
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1.8k
views
error and warning message with blocked samples with Limma
GO Cancer mouse4302 limma GO Cancer mouse4302 limma
updated 11.1 years ago by 50k • written 11.1 years ago by ★ 2.0k
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3
replies
1.7k
views
QuasiSeq vs DSS
RNASeq Cancer edgeR DSS RNASeq Cancer edgeR DSS
updated 11.2 years ago by ★ 7.9k • written 11.2 years ago by ★ 2.0k
0
votes
1
reply
982
views
AffylmGUI freezes with recent updates of Windows 7 Enterprise Service Pack 1
Cancer affylmGUI Cancer affylmGUI
updated 11.3 years ago by ▴ 450 • written 11.3 years ago by ★ 2.0k
0
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0
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1.6k
views
Error message with transcriptCounts(easyRNASeq) performed with gtf file generated with cuffmerge
RNASeq Annotation Normalization Cancer Organism BSgenome BSgenome easyRNASeq RNASeq
11.4 years ago Richard Friedman ★ 2.0k
0
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3
replies
2.1k
views
Error: package/namespace load failed for ‘affycoretools
GO GUI Cancer GO GUI Cancer
updated 11.4 years ago by ★ 13k • written 11.4 years ago by ★ 2.0k
0
votes
7
replies
2.2k
views
Getting counts for previously undetected transcripts and genes with easyRNASeq: comparison to Cufflinks
RNASeq Annotation Cancer edgeR cqn easyRNASeq RNASeq Annotation Cancer edgeR cqn
updated 11.4 years ago by ★ 1.2k • written 11.4 years ago by ★ 2.0k
0
votes
2
replies
1.3k
views
error message with easyRNASeq use case
RNASeq Cancer Organism easyRNASeq RNASeq Cancer Organism easyRNASeq
updated 11.5 years ago by 65k • written 11.5 years ago by ★ 2.0k
0
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3
replies
1.9k
views
Error: 'devel' version requires a more recent R
GUI Cancer easyRNASeq GUI Cancer easyRNASeq
updated 11.5 years ago by 21k • written 11.5 years ago by ★ 2.0k
0
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13
replies
1.8k
views
Where to get BAM files for easyRNASeq human use case
Cancer BSgenome BSgenome Cancer BSgenome BSgenome
updated 11.7 years ago by ★ 1.2k • written 11.7 years ago by ★ 2.0k
0
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1
reply
1.3k
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Warnings with running easyRNASeq with easyRNASeq tutorial
RNASeq Annotation GUI Cancer BSgenome BSgenome easyRNASeq RNASeq Annotation GUI Cancer
updated 11.8 years ago by ★ 1.2k • written 11.8 years ago by ★ 2.0k
0
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1
reply
1.2k
views
Error message running through CQN Vignette
Cancer cqn Cancer cqn
updated 11.9 years ago by ★ 6.5k • written 11.9 years ago by ★ 2.0k
0
votes
1
reply
1.1k
views
How many tests do you need to moderate the t-statistic in Limma
Cancer Cancer
updated 11.9 years ago by ▴ 130 • written 11.9 years ago by ★ 2.0k
0
votes
9
replies
1.8k
views
necessity of moderated t statistic and false discoveries for small predefined gene list?
Cancer affy limma Cancer affy limma
updated 12.0 years ago by ▴ 260 • written 12.0 years ago by ★ 2.0k
0
votes
0
replies
851
views
cutoff for NUSE plot in oligo
Cancer Cancer
12.2 years ago Richard Friedman ★ 2.0k
0
votes
6
replies
7.0k
views
DeSeq vs current version of Cuffdiff
Sequencing Bayesian Cancer DESeq Sequencing Bayesian Cancer DESeq
updated 12.2 years ago by ▴ 290 • written 12.3 years ago by ★ 2.0k
0
votes
10
replies
1.7k
views
objective criterion for identification of outlying arrays by pca
Bayesian Cancer Bayesian Cancer
updated 12.5 years ago by 6.7k • written 12.5 years ago by ★ 2.0k
0
votes
3
replies
1.2k
views
Practical utilization of SQN in ST1.0 Gene normalization.
Bayesian Cancer oligo Bayesian Cancer oligo
updated 12.6 years ago by ★ 4.2k • written 12.6 years ago by ★ 2.0k
0
votes
0
replies
1.4k
views
NUSE and RLE PLOTS for ST1.0 Gene chips with oligo w/o 1st quantile line
Bayesian Cancer oligo Bayesian Cancer oligo
12.6 years ago Richard Friedman ★ 2.0k
0
votes
0
replies
1.1k
views
Pathway specific gene lists in SPIA
Bayesian Cancer Bayesian Cancer
12.9 years ago Richard Friedman ★ 2.0k
3
votes
0
replies
2.8k
views
Evidence-based guidelines for use the method="robust" option in lmFit
Microarray Normalization Bayesian Regression Cancer limma Microarray Normalization Cancer
13.0 years ago Richard Friedman ★ 2.0k
0
votes
1
reply
1.0k
views
st 1.0 gene quality measures
Cancer Cancer
updated 13.3 years ago by ▴ 350 • written 13.3 years ago by ★ 2.0k
0
votes
1
reply
972
views
transformation for illumina methylation beta data prior to input to limma
Cancer limma Cancer limma
updated 13.3 years ago by 21k • written 13.3 years ago by ★ 2.0k
0
votes
0
replies
650
views
Application of Method of Aryee et al to Illumina methylation Arrays
Microarray Cancer Microarray Cancer
13.3 years ago Richard Friedman ★ 2.0k
0
votes
3
replies
1.5k
views
identical output plots for NUSE AND RLE
GO Cancer affyPLM GO Cancer affyPLM
updated 13.9 years ago by ▴ 320 • written 13.9 years ago by ★ 2.0k
0
votes
1
reply
1.1k
views
Error message with rmaMicroRna on mouse data in AgiMicroRNA
Cancer probe AgiMicroRna Cancer probe AgiMicroRna
updated 13.9 years ago by ▴ 360 • written 13.9 years ago by ★ 2.0k
0
votes
0
replies
811
views
Error in cvArray in AgiMicroRNA
Cancer probe Cancer probe
13.9 years ago Richard Friedman ★ 2.0k
0
votes
0
replies
703
views
mvaPlots of RMA normalized data in AgiMicroRNA
Cancer AgiMicroRna Cancer AgiMicroRna
13.9 years ago Richard Friedman ★ 2.0k
0
votes
0
replies
559
views
Error Message upon filtering in AgiMicroRNA of RMA normalized object.
Cancer Cancer
13.9 years ago Richard Friedman ★ 2.0k
0
votes
2
replies
864
views
Error message with rmaMicroRna on mouse data in AgiMicroRNA
Cancer probe Cancer probe
updated 13.9 years ago by ▴ 360 • written 13.9 years ago by ★ 2.0k
0
votes
0
replies
726
views
AgiMicroRNA and Extra columns in Agilent Mouse miRNA Microarray Release 12.0 G4471A-021828.
miRNA Microarray Cancer microRNA miRNA Microarray Cancer microRNA
13.9 years ago Richard Friedman ★ 2.0k
0
votes
4
replies
773
views
Error Message with RMA normalization in AgiMicroRNA
Cancer Cancer
updated 13.9 years ago by 65k • written 13.9 years ago by ★ 2.0k
0
votes
1
reply
797
views
error message in cvArray command in AgiMicroRna
Cancer Cancer
updated 13.9 years ago by ▴ 460 • written 13.9 years ago by ★ 2.0k
0
votes
1
reply
1000
views
Difficulty installing oneChannelGUI in Vista
Cancer affylmGUI oneChannelGUI Cancer affylmGUI oneChannelGUI
updated 14.0 years ago by 65k • written 14.0 years ago by ★ 2.0k
0
votes
1
reply
911
views
Multiple genes per probeset
Annotation Cancer mouse4302 annaffy ASSIGN Annotation Cancer mouse4302 annaffy ASSIGN
updated 14.1 years ago by 65k • written 14.1 years ago by ★ 2.0k
0
votes
0
replies
913
views
spiked controls wrong order on samples wit 2 rounds of amplification normalize with GCRMA
Microarray Cancer affy gcrma affyPLM Microarray Cancer affy gcrma affyPLM
15.6 years ago Richard Friedman ★ 2.0k
0
votes
1
reply
863
views
kinexus antibody arrays
Cancer Cancer
15.7 years ago Richard Friedman ★ 2.0k
0
votes
4
replies
1.1k
views
LARGE Change in GCRMA expression values between versions (REPEAT QUESTION: PLEASE REPLY)
Cancer gcrma Cancer gcrma
updated 15.9 years ago by ▴ 260 • written 15.9 years ago by ★ 2.0k
0
votes
0
replies
575
views
GCRMA-induced correlations? LARGE Change in GCRMA expression values (REPEAT QUESTION)
Microarray Normalization Cancer gcrma Microarray Normalization Cancer gcrma
15.9 years ago Richard Friedman ★ 2.0k
0
votes
1
reply
621
views
GCRMA-induced correlations? LARGE Change in GCRMA expression values
Microarray Normalization Cancer gcrma Microarray Normalization Cancer gcrma
updated 16.0 years ago by ★ 3.9k • written 16.0 years ago by ★ 2.0k
0
votes
4
replies
1.1k
views
mouse4302.db vs mouse 4302
Annotation Cancer mouse4302 Annotation Cancer mouse4302
updated 16.1 years ago by ★ 7.2k • written 16.1 years ago by ★ 2.0k
0
votes
3
replies
984
views
mouse4302,db_2.0.2 in AffylmGUI
Annotation Cancer mouse4302 affy limma Annotation Cancer mouse4302 affy limma
updated 16.1 years ago by ▴ 450 • written 16.1 years ago by ★ 2.0k
0
votes
1
reply
766
views
stability of gene lists with gcrma and limma upon changing the number of samples in the normalization
Cancer limma gcrma Cancer limma gcrma
updated 16.1 years ago by 21k • written 16.1 years ago by ★ 2.0k
0
votes
5
replies
1.3k
views
Genefilter parameters for mouse 430 2
Cancer mouse4302 genefilter limma gcrma Cancer mouse4302 genefilter limma gcrma
updated 16.2 years ago by 65k • written 16.2 years ago by ★ 2.0k
0
votes
3
replies
1.1k
views
R crashes after image array plots hgu133plus2 in R2.6.0
GUI hgu133plus2 affy limma affylmGUI GUI hgu133plus2 affy limma affylmGUI
updated 16.5 years ago by 25k • written 16.5 years ago by ★ 2.0k
0
votes
0
replies
735
views
Affymetrix quality control metrics with simpleaffy
GO hgu133plus2 affy GO hgu133plus2 affy
16.6 years ago Richard Friedman ★ 2.0k
0
votes
0
replies
1.1k
views
code for technical replicates in Limma with affy
Survival cdf annotate affy limma gcrma matchprobes affyio Survival cdf annotate affy
16.6 years ago Richard Friedman ★ 2.0k
0
votes
2
replies
902
views
affTableAnn error
hgu133a2 moe430a mouse430a2 cdf limma matchprobes hgu133a2 moe430a mouse430a2 cdf limma
updated 16.7 years ago by ★ 7.4k • written 16.7 years ago by ★ 2.0k
0
votes
2
replies
865
views
RE : Re: question on limma package
limma limma
updated 16.8 years ago by ▴ 40 • written 16.8 years ago by ★ 2.0k
82 results • Page 1 of 2
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