Showing : Beadarray • reset
4
votes
10
replies
2.2k
views
Zero values for bead backgrounds (reading idat files using Illuminaio)
illuminaio idat beadarray
updated 8.7 years ago by ★ 6.5k • written 8.7 years ago by ▴ 30
3
votes
12
replies
6.2k
views
packages installation problem
limma Rqc beadarray Lumi
updated 8.3 years ago by ▴ 70 • written 8.3 years ago by • 0
3
votes
1
reply
965
views
Limma: extend reading raw Illumina files, with Gene Omnbus Expression formats
beadarray GSE22247 limma GEOquery IlluminaChip
updated 3.4 years ago by 50k • written 3.4 years ago by • 0
3
votes
1
reply
866
views
How to convert dataframe into ExpressionSetIllumina / summarized data with beadarray package?
beadarray
updated 4.5 years ago by ★ 1.1k • written 4.5 years ago by ▴ 20
3
votes
9
replies
5.7k
views
Illumina Expression analysis from iDAT files
beadarray lumi illuminaio idat
updated 2.4 years ago by 50k • written 10.5 years ago by 21k
2
votes
4
replies
1.3k
views
The error when using beadarry and limma packages for analysing illumina chip
limma beadarray illumina
updated 5.9 years ago by 50k • written 5.9 years ago by ▴ 10
2
votes
4
replies
1.3k
views
How to get methylation data in count data format from "Infinium MethylationEPIC BeadChips (Illumina)" idat files
methylationArrayAnalysis illuminaio beadarray DSS bsseqData
2.3 years ago Jojo • 0
1
vote
2
replies
1.4k
views
readIllumina couln't read bead-level txt file from GEO raw data
beadarray bead-level GEO lumi
updated 8.2 years ago by ★ 6.5k • written 8.2 years ago by • 0
1
vote
3
replies
911
views
Help with the beadarray package
IlluminaChip beadarray
updated 2.6 years ago by 50k • written 2.6 years ago by • 0
1
vote
2
replies
7.3k
views
LIMMA - summarization of Illumina probes for same gene
probe affy limma beadarray probe affy limma beadarray
updated 12.2 years ago by ▴ 180 • written 12.2 years ago by 50k
1
vote
2
replies
1.5k
views
Problems compiling lumi on Solaris Sparc and R 2.9.0
beadarray lumi beadarray lumi
updated 14.3 years ago by ★ 7.4k • written 14.3 years ago by ▴ 20
1
vote
3
replies
2.5k
views
Installing arrayQualityMetrics: ERROR: lazy loading failed
arrayqualitymetrics beadarray
7.9 years ago • updated 4.8 years ago Lluís Revilla Sancho ▴ 730
0
votes
2
replies
1.0k
views
beadarray example data problem
Biobase affy affyio beadarray Biobase affy affyio beadarray
17.6 years ago • updated 17.5 years ago Keith Satterley ▴ 450
0
votes
8
replies
1.6k
views
illumina --> limma?
GO limma beadarray BeadExplorer GO limma beadarray BeadExplorer
updated 17.7 years ago by 21k • written 17.7 years ago by ▴ 60
0
votes
0
replies
827
views
Beadarray Filtering by Probequality
beadarray beadarray
11.7 years ago Guest User ★ 13k
0
votes
0
replies
993
views
LimmaGUI for illumina data
GUI affy limma affylmGUI limmaGUI beadarray GUI affy limma affylmGUI limmaGUI beadarray
17.9 years ago Mark Dunning ▴ 320
0
votes
5
replies
1.5k
views
info su illumina
beadarray beadarray
updated 18.2 years ago by ▴ 320 • written 18.2 years ago by ▴ 250
0
votes
0
replies
651
views
Error in imageplot with .locs files
beadarray beadarray
13.5 years ago Mike Smith ★ 6.5k
0
votes
0
replies
1.1k
views
Beadarray and illumina methylation arrays
Normalization Cancer beadarray Normalization Cancer beadarray
15.5 years ago Julian Lee ▴ 140
0
votes
1
reply
1.2k
views
beadarray readIllumina suggestions
Microarray Annotation geneplotter affy affyio beadarray quantsmooth beadarraySNP affy
updated 16.9 years ago by ▴ 460 • written 16.9 years ago by ▴ 10
0
votes
2
replies
1.0k
views
beadarray - raw data import - bead background intensities faulty
beadarray beadarray
updated 16.9 years ago by ▴ 320 • written 16.9 years ago by ▴ 20
0
votes
1
reply
854
views
beadarray bead-level normalisation for single channel data
beadarray beadarray
updated 16.7 years ago by ▴ 550 • written 16.7 years ago by ▴ 70
0
votes
4
replies
975
views
displayTIFFImage funtion in beadarray package
beadarray beadarray
updated 16.8 years ago by ▴ 460 • written 16.8 years ago by ▴ 30
0
votes
3
replies
1.6k
views
beadarray package: problem with bead level data
geneplotter affy affyio beadarray quantsmooth beadarraySNP geneplotter affy affyio
updated 16.8 years ago by ▴ 40 • written 16.8 years ago by ▴ 270
0
votes
0
replies
810
views
beadarray package: problem with bead level data
GO beadarray GO beadarray
16.8 years ago Krys Kelly ▴ 270
0
votes
4
replies
1.4k
views
Beadarray expression data
affy beadarray affy beadarray
updated 16.8 years ago by ▴ 320 • written 16.8 years ago by ▴ 110
0
votes
1
reply
1.4k
views
ControlID Qcinfo slot in Illumina beadarray summary data?
geneplotter affy affyio beadarray quantsmooth beadarraySNP geneplotter affy affyio
updated 16.8 years ago by ▴ 320 • written 16.8 years ago by ▴ 410
0
votes
1
reply
1.2k
views
beadarray - combing
geneplotter affy affyio beadarray quantsmooth beadarraySNP geneplotter affy affyio
updated 16.8 years ago by ▴ 320 • written 16.8 years ago by ▴ 270
0
votes
0
replies
944
views
Pulling significant gene ids from beadarray data
Biobase annotate affy affyio beadarray quantsmooth beadarraySNP lumi Biobase annotate
16.8 years ago Johnstone, Alice ▴ 410
0
votes
6
replies
2.2k
views
Illumina bead arrays
beadarray beadarray
updated 16.7 years ago by ▴ 40 • written 16.8 years ago by ▴ 110
0
votes
0
replies
687
views
Beadarray
beadarray beadarray
17.0 years ago Mark Dunning ▴ 320
0
votes
2
replies
889
views
Help on beadarray
beadarray beadarray
updated 17.0 years ago by ▴ 460 • written 17.0 years ago by ▴ 10
0
votes
1
reply
1.3k
views
How do I background correct an Illumina eset without using lumiB?
Microarray probe PROcess convert beadarray lumi Microarray probe PROcess convert lumi
updated 11.0 years ago by ▴ 440 • written 11.0 years ago by ★ 13k
0
votes
0
replies
1.3k
views
Beadarray error: comparison of types not implemented
Annotation ExperimentData beadarray Annotation ExperimentData beadarray
15.1 years ago Anne-Kristin Stavrum ▴ 10
0
votes
6
replies
1.4k
views
Illumina Beadarray negative data
beadarray lumi beadarray lumi
updated 16.5 years ago by 21k • written 16.5 years ago by ▴ 640
0
votes
3
replies
1.1k
views
Using beadarray for bead level data, what is the ProbeID with 1000's of beads?
probe beadarray probe beadarray
updated 16.5 years ago by ★ 3.6k • written 16.5 years ago by ▴ 270
0
votes
1
reply
878
views
beadarray - readBeadLevelData problems
Cancer beadarray Cancer beadarray
17.2 years ago Mark Dunning ▴ 320
0
votes
4
replies
2.3k
views
Installing beadarray
annotate geneplotter beadarray AnnotationDbi annotate geneplotter beadarray AnnotationDbi
updated 16.5 years ago by 21k • written 16.5 years ago by ▴ 270
0
votes
0
replies
570
views
beadarray package: problem with object made by createBeadSummaryData
Cancer beadarray Cancer beadarray
16.5 years ago Martin Morgan 25k
0
votes
11
replies
1.9k
views
Illumina beadlevel expression data
beadarray beadarray
updated 16.5 years ago by ▴ 460 • written 16.5 years ago by ▴ 110
0
votes
1
reply
828
views
Analysis of Illlumina methylation array data using beadarray
beadarray beadarray
updated 16.5 years ago by ▴ 320 • written 16.5 years ago by ▴ 30
0
votes
0
replies
814
views
Analysis of Illumina methylation array data using beadarray
Cancer PROcess beadarray Cancer PROcess beadarray
16.5 years ago Kellie J. Archer, Ph.D. ▴ 120
0
votes
4
replies
1.5k
views
About beadarray normaliseIllumina() warning messages
Normalization GO safe beadarray lumi Normalization GO safe beadarray lumi
updated 16.3 years ago by ▴ 410 • written 16.3 years ago by ▴ 150
0
votes
1
reply
715
views
readBeadSummaryData() in beadarray package
beadarray beadarray
updated 16.3 years ago by ▴ 410 • written 16.3 years ago by ▴ 10
0
votes
0
replies
812
views
Regarding the use of eBayes
limma beadarray limma beadarray
16.3 years ago Gordon Smyth 50k
0
votes
7
replies
1.5k
views
Beadarray readBeadSummaryData() problem
beadarray beadarray
updated 15.9 years ago by ▴ 10 • written 15.9 years ago by ▴ 640
0
votes
1
reply
830
views
beadarray - can't load data
beadarray beadarray
updated 15.8 years ago by ▴ 460 • written 15.8 years ago by ▴ 10
0
votes
0
replies
855
views
SNPs data analysis
Normalization beadarray Normalization beadarray
15.7 years ago Mondher GATRI ▴ 10
0
votes
7
replies
1.7k
views
Illumina BeadChips and beadarray
beadarray beadarray
updated 15.7 years ago by ▴ 460 • written 15.7 years ago by ▴ 620
0
votes
1
reply
1.3k
views
Problem reading data with beadarray package
geneplotter affy affyio beadarray quantsmooth beadarraySNP geneplotter affy affyio
updated 16.6 years ago by ▴ 460 • written 16.6 years ago by ▴ 10
50 results • Page 1 of 1
Recent ...
Replies
Comment: deseq2 results by sajadahmad41454 • 0
thank you for your response, should i remove or discard that sample? since the red outlier on left represents one of healthy samples.
Comment: deseq2 results by swbarnes2 ★ 1.4k
It looks like the PCA plot of a real RNASeq experiment. The red outlier on the left might be the mathematical reason why you have few vali…
Comment: Multi-factorial, longitudinal disease progression analysis with unbalanced patie by Dylan.Sheerin • 0
Thank you very much, Gordon. I'll give voomLmFit a go!
Answer: Multi-factorial, longitudinal disease progression analysis with unbalanced patie by Gordon Smyth 50k
Including subjectID in the design matrix always accounts for unbalanced sampling and patient variation but subjects with incomplete records…
Comment: Log-cpm values from limma by Gordon Smyth 50k
No, it does not mean that. `voom()` uses the design matrix with the W covariates, to compute precision weights but not to adjust the log-cp…
Votes
Comment: deseq2 results
Comment: deseq2 results
Answer: Multi-factorial, longitudinal disease progression analysis with unbalanced patie
Answer: Extremely small p-values using Limma for proteomic data
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