Showing : Beadarray • reset
4
votes
10
replies
2.2k
views
Zero values for bead backgrounds (reading idat files using Illuminaio)
illuminaio idat beadarray
updated 8.6 years ago by ★ 6.5k • written 8.6 years ago by ▴ 30
3
votes
12
replies
6.2k
views
packages installation problem
limma Rqc beadarray Lumi
updated 8.2 years ago by ▴ 70 • written 8.2 years ago by • 0
3
votes
1
reply
953
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
855
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
5.6k
views
Illumina Expression analysis from iDAT files
beadarray lumi illuminaio idat
updated 2.4 years ago by 50k • written 10.4 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
1.2k
views
How to get methylation data in count data format from "Infinium MethylationEPIC BeadChips (Illumina)" idat files
methylationArrayAnalysis illuminaio beadarray DSS bsseqData
2.2 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 8.1 years ago by ★ 6.5k • written 8.1 years ago by • 0
1
vote
3
replies
904
views
Help with the beadarray package
IlluminaChip beadarray
updated 2.5 years ago by 50k • written 2.5 years ago by • 0
1
vote
2
replies
7.2k
views
LIMMA - summarization of Illumina probes for same gene
probe affy limma beadarray probe affy limma beadarray
updated 12.1 years ago by ▴ 180 • written 12.1 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
2.4k
views
Installing arrayQualityMetrics: ERROR: lazy loading failed
arrayqualitymetrics beadarray
7.8 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
17.5 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
821
views
Beadarray Filtering by Probequality
beadarray beadarray
11.7 years ago Guest User ★ 13k
0
votes
0
replies
980
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
650
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
843
views
beadarray bead-level normalisation for single channel data
beadarray beadarray
updated 16.6 years ago by ▴ 550 • written 16.6 years ago by ▴ 70
0
votes
4
replies
967
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
1.5k
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
806
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 16.7 years ago by ▴ 320 • written 16.7 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 16.7 years ago by ▴ 320 • written 16.7 years ago by ▴ 410
0
votes
1
reply
1.2k
views
beadarray - combing
geneplotter affy affyio beadarray quantsmooth beadarraySNP geneplotter affy affyio
updated 16.7 years ago by ▴ 320 • written 16.7 years ago by ▴ 270
0
votes
0
replies
938
views
Pulling significant gene ids from beadarray data
Biobase annotate affy affyio beadarray quantsmooth beadarraySNP lumi Biobase annotate
16.7 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 16.7 years ago by ▴ 110
0
votes
0
replies
684
views
Beadarray
beadarray beadarray
17.0 years ago Mark Dunning ▴ 320
0
votes
2
replies
876
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 10.9 years ago by ▴ 440 • written 10.9 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
870
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
564
views
beadarray package: problem with object made by createBeadSummaryData
Cancer beadarray Cancer beadarray
16.5 years ago Martin Morgan 25k
0
votes
11
replies
1.8k
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
822
views
Analysis of Illlumina methylation array data using beadarray
beadarray beadarray
updated 16.4 years ago by ▴ 320 • written 16.4 years ago by ▴ 30
0
votes
0
replies
808
views
Analysis of Illumina methylation array data using beadarray
Cancer PROcess beadarray Cancer PROcess beadarray
16.4 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
711
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
808
views
Regarding the use of eBayes
limma beadarray limma beadarray
16.2 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
819
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
847
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 16.5 years ago by ▴ 460 • written 16.5 years ago by ▴ 10
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Comment: Why p value inconsistent when using different number of pathway score? by Chris • 0
Hi Robert, if two conditions don't have hundreds of differential express genes ( in some conditions such as peripheral blood Alzheimer vs n…
Answer: Dominance Index for Shotgun Metagenomics Data by Leo Lahti ▴ 40
1. Note that Simpson's dominance index (\lambda) is a different index than inverse Simpson (1/\lambda) or reciprocal Simpson (1-\lambda). T…
Comment: Math expression in shapeCustom legend in EnhancedVolcano by pl23 • 0
Thank you very much - that worked perfectly! Word of warning to those who try this: it screws up the other legends because of the markdown …
Answer: PCA plot suggestions by Michael Love 41k
For help with interpretation and design of analysis, I recommend working with a local statistician. Due to time restrictions, I can only…
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length by ussarizona ▴ 10
Hi Michael, Yes, I could figure it out what does the error mean. In my matrix I had the first colum GeneID while in my condition I only h…
Votes
Answer: Dominance Index for Shotgun Metagenomics Data
Answer: Math expression in shapeCustom legend in EnhancedVolcano
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
Comment: Deseq2. decontXcounts not integers. Useful alternative?
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
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