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
966
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
868
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
913
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
828
views
Beadarray Filtering by Probequality
beadarray beadarray
11.7 years ago Guest User ★ 13k
0
votes
0
replies
997
views
LimmaGUI for illumina data
GUI affy limma affylmGUI limmaGUI beadarray GUI affy limma affylmGUI limmaGUI beadarray
18.0 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
653
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
855
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
811
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
948
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
689
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
1.4k
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
879
views
beadarray - readBeadLevelData problems
Cancer beadarray Cancer beadarray
17.3 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
572
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
831
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 16.4 years ago by ▴ 410 • written 16.4 years ago by ▴ 150
0
votes
1
reply
717
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
813
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
856
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
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Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Poonam • 0
Thank you, Michael. I used the script shared by you. The genomic distribution of the original and null loci looks like non-stationary. Plea…
Comment: ChAMP installation issue by shepherl 3.9k
Without showing the commands you tried and the full output including error it is impossible to help. Please provide additional information…
Answer: Gene set enrichment analysis by Guido Hooiveld ★ 3.9k
No, that is not possible. The idea of gene set enrichment analysis (GSEA) is that it checks which gene sets (pathways, GO categories) are e…
Comment: error in limma , contrast.matrix Number of rows of contrast matrix must match nu by zzrammal • 0
thank you for your response. The problem is resolved. When i did a fit for the linear model i put NULL for the design fit <- lmFit(count_…
Comment: More regions in union when increasing DBA$config$mergeOverlap by Ziliang • 0
I am so confused and frustrated learning to use this software. Isn't how you merge the peaksets one of the most important steps for the com…
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A: DEXSeq time course design
using variable in design formula
differential expression for Single-cell RNAseq data using edgeR
Why p value inconsistent when using different number of pathway score?
Answer: error in limma , contrast.matrix Number of rows of contrast matrix must match nu
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