Showing : Lumi • reset
3
votes
9
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7.3k
views
Illumina Expression analysis from iDAT files
beadarray lumi illuminaio idat
updated 3.9 years ago by 53k • written 12.0 years ago by 21k
0
votes
10
replies
3.0k
views
MethyLumiM to MethyLumiSet?
convert lumi methylumi minfi wateRmelon convert lumi methylumi minfi wateRmelon
updated 12.0 years ago by ★ 4.2k • written 12.0 years ago by ▴ 190
0
votes
2
replies
4.8k
views
Annotate - gene name to ENSEMBL
Microarray GO lumi Microarray GO lumi
updated 12.0 years ago by ▴ 400 • written 12.0 years ago by ▴ 180
0
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0
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1.2k
views
MethyLumiM to MethyLumiSet?
convert lumi methylumi convert lumi methylumi
12.0 years ago Allegra Petti ▴ 120
0
votes
3
replies
2.0k
views
mifi unable to install by bioLite
lumi lumi
updated 12.1 years ago by ★ 4.2k • written 12.1 years ago by ▴ 30
0
votes
0
replies
1.1k
views
variation between chips - neqc()
Microarray Normalization probe limma lumi Microarray Normalization probe limma lumi
12.1 years ago Rao,Xiayu ▴ 550
0
votes
1
reply
2.5k
views
Control probe QC plots for Infinium 450k chips (lumi, minfi...)
Annotation probe lumi minfi Annotation probe lumi minfi
updated 12.2 years ago by ★ 4.2k • written 12.2 years ago by ▴ 90
0
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0
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1.2k
views
GenomeStudio output and lumi
lumi lumi
12.2 years ago Sanja Rogic ▴ 10
0
votes
2
replies
2.2k
views
Reading Illumina data from GenomeStudio in limma
probe lumi probe lumi
updated 12.2 years ago by ★ 3.6k • written 12.3 years ago by ★ 13k
0
votes
1
reply
1.8k
views
problem with 'FDb.InfiniumMethylation.hg19'
BSgenome BSgenome lumi methylumi BSgenome BSgenome lumi methylumi
updated 12.4 years ago by ▴ 120 • written 12.4 years ago by 68k
0
votes
2
replies
1.7k
views
lumiR returns ExpressionSet object instead of LumiBatch
GO Mus musculus BSgenome BSgenome lumi GO Mus musculus BSgenome BSgenome lumi
updated 12.4 years ago by ▴ 440 • written 12.4 years ago by ★ 13k
0
votes
4
replies
1.2k
views
proper way to handle small changes from different package versions
lumi lumi
updated 12.5 years ago by 68k • written 12.5 years ago by ▴ 360
0
votes
0
replies
1.5k
views
How do I background correct an Illumina eset without using lumiB
Microarray probe limma PROcess convert beadarray lumi Microarray probe limma PROcess
12.5 years ago Gordon Smyth 53k
0
votes
1
reply
1.7k
views
How do I background correct an Illumina eset without using lumiB?
Microarray probe PROcess convert beadarray lumi Microarray probe PROcess convert lumi
updated 12.5 years ago by ▴ 440 • written 12.5 years ago by ★ 13k
0
votes
0
replies
2.3k
views
how to use MethyLumiM object in BMIQ(wateRmelon)
lumi methylumi lumi methylumi
12.6 years ago Guest User ★ 13k
0
votes
1
reply
1.1k
views
Pre-processing and probe removal in lumi
lumi lumi
updated 12.7 years ago by ▴ 480 • written 12.7 years ago by ▴ 30
0
votes
1
reply
4.5k
views
Problem installing packages on new R
limma beadarray lumi arrayMvout limma beadarray lumi arrayMvout
updated 12.7 years ago by 68k • written 12.7 years ago by ▴ 10
0
votes
0
replies
1.4k
views
importing data problem with methyAnalysis package
Biophysics Annotation Preprocessing annotate lumi methyAnalysis Biophysics Annotation lumi
12.9 years ago Pan Du ▴ 440
0
votes
0
replies
757
views
lumi NuID to UCSC, for example "xl5dFtdFTQCRSSkbwc" to something like "uc002qsd.4"
lumi lumi
12.9 years ago Fenton Christopher Graham ▴ 90
0
votes
2
replies
2.1k
views
arrayQualityMetrics and lumi - failure to load in R2.15.1 windows
lumi arrayQualityMetrics lumi arrayQualityMetrics
updated 13.0 years ago by ★ 13k • written 13.0 years ago by ▴ 480
0
votes
5
replies
1.8k
views
gdata affects LumiBatch::combine method
lumi lumi
updated 13.1 years ago by 25k • written 13.1 years ago by ▴ 910
0
votes
2
replies
1.6k
views
Generating GEO submission files from beadarray summary data
beadarray lumi PROMISE beadarray lumi PROMISE
updated 13.1 years ago by ★ 1.1k • written 13.1 years ago by ★ 4.2k
0
votes
2
replies
1.5k
views
Error, while using produceGEOSampleInfoTemplate
beadarray lumi PROMISE beadarray lumi PROMISE
updated 13.1 years ago by ★ 4.2k • written 13.1 years ago by ▴ 350
0
votes
3
replies
2.4k
views
problems installing lumi
lumi lumi
updated 13.2 years ago by ▴ 440 • written 13.2 years ago by ▴ 110
0
votes
1
reply
1.1k
views
lumi - Heatmap
lumi lumi
updated 13.2 years ago by 21k • written 13.2 years ago by ▴ 350
0
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4
replies
1.5k
views
#Identify differentially expressed genes
limma lumi limma lumi
updated 13.2 years ago by 53k • written 13.2 years ago by ▴ 350
0
votes
4
replies
3.5k
views
Error : package slot missing from signature for generic
Biobase lumi oligoClasses Biobase lumi oligoClasses
13.3 years ago Mark Cowley ▴ 910
0
votes
0
replies
1.1k
views
lumi - limma - geneSymbol and geneName N/A
limma lumi limma lumi
13.3 years ago Paolo Kunderfranco ▴ 350
0
votes
1
reply
1.0k
views
lumi - limma - geneSymbol/geneName
limma lumi limma lumi
updated 13.3 years ago by ★ 7.2k • written 13.3 years ago by ▴ 350
0
votes
1
reply
1.6k
views
lumi - construct a design matrix
lumi CMA lumi CMA
updated 13.3 years ago by ▴ 260 • written 13.3 years ago by ▴ 350
0
votes
3
replies
1.8k
views
Simple conceptual question
Normalization lumi Normalization lumi
updated 13.3 years ago by ▴ 380 • written 13.3 years ago by ▴ 440
0
votes
0
replies
735
views
Question about lumiMethyN() in lumi package
probe lumi probe lumi
13.4 years ago Pan Du ▴ 440
0
votes
0
replies
1.1k
views
output from "getChipInfo" prevents Illumina ProbeID conversion
Annotation Normalization convert lumi Annotation Normalization convert lumi
13.4 years ago Pan Du ▴ 440
0
votes
0
replies
1.5k
views
Illumina beadarray analysis with lumi
Normalization Preprocessing probe PROcess beadarray lumi Normalization Preprocessing probe
13.6 years ago Ahmet ZEHIR ▴ 50
0
votes
0
replies
1.0k
views
Question about Infinium Methylation normalization using lumi package
Normalization probe lumi Normalization probe lumi
13.6 years ago Pan Du ▴ 440
0
votes
1
reply
1.1k
views
Question about using lumi package
Cancer lumi Cancer lumi
updated 13.6 years ago by ▴ 440 • written 13.6 years ago by ▴ 10
0
votes
0
replies
1.3k
views
Bioconductor Digest, Vol 110, Issue 11
Normalization Cancer lumi methylumi Normalization Cancer lumi methylumi
13.6 years ago Pan Du ▴ 440
0
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0
replies
1.2k
views
Help with lumi R package
Microarray lumi Microarray lumi
13.6 years ago Minyue Wang ▴ 10
0
votes
3
replies
1.4k
views
some questions about lumi package and Illumina arrays
Normalization probe limma lumi Normalization probe limma lumi
updated 13.6 years ago by ★ 3.6k • written 13.6 years ago by ▴ 840
0
votes
0
replies
877
views
Get negative control probes in lumiBarnes data set
beadarray lumi beadarray lumi
13.6 years ago Guest User ★ 13k
0
votes
1
reply
1.2k
views
LumiT VST error
lumi lumi
updated 13.7 years ago by ▴ 440 • written 13.7 years ago by ▴ 350
0
votes
0
replies
753
views
Bioconductor Digest, Vol 109, Issue 14
Annotation lumi Annotation lumi
13.7 years ago Pan Du ▴ 440
0
votes
0
replies
2.1k
views
reading with lumi
Preprocessing PROcess lumi methylumi Preprocessing PROcess lumi methylumi
13.7 years ago Tim Triche ★ 4.2k
0
votes
0
replies
1.3k
views
reading with lumi
lumi lumi
13.7 years ago Ed Siefker ▴ 230
0
votes
10
replies
1.8k
views
warning in lumi
Proteomics lumi Proteomics lumi
updated 13.7 years ago by 25k • written 13.7 years ago by ▴ 110
0
votes
1
reply
2.6k
views
Estimating fold change from limma 'log2FC' using lumi
Microarray Normalization limma lumi Microarray Normalization limma lumi
updated 13.7 years ago by ▴ 30 • written 13.7 years ago by 53k
0
votes
0
replies
1.7k
views
Estimating fold change from limma 'log2FC' using lumi vst instead of log2 transformation?
Microarray qPCR Normalization limma lumi Microarray qPCR Normalization limma lumi
13.7 years ago Ross ▴ 30
0
votes
0
replies
1.6k
views
lumi and 450k control probe files
probe PROcess lumi probe PROcess lumi
13.9 years ago Oliver Hofmann ▴ 50
0
votes
0
replies
716
views
Median/Quantile values table
lumi lumi
13.9 years ago Guest User ★ 13k
0
votes
0
replies
1.3k
views
lumiR Does Not Create lumi Batch
Annotation lumi Annotation lumi
13.9 years ago Sean Davis 21k
243 results • Page 2 of 5
Recent ...
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Answer: Add additional maintainer for MOFA2 by shepherl 4.2k
These requests are best on the bioc-devel @ r-project.org or a request to maintainer @ bioconductor.org -- We would ideally need the curre…
Answer: After running samtools, the featureCounts command crashed. by Kevin Blighe ★ 4.0k
Hi Rui Tang, The "buffer overflow detected" error in featureCounts usually stems from a corrupted or malformed GTF file, often due to tr…
Answer: Problem with the TMB plot by Kevin Blighe ★ 4.0k
Hi, The linear TMB plot with no clustering suggests your variant calls may lack sample-specific discrimination, likely due to filtering ap…
Answer: gene Set with high AUC score but no cells assigned to cell type by Kevin Blighe ★ 4.0k
Hi, You have correctly identified the issue: AUCell's automatic threshold selection is conservative by design, aiming for specificity to…
Answer: featureCounts -L: high unassigned:mapq fraction by Kevin Blighe ★ 4.0k
Hi Katarzyna, The discrepancy arises because your samtools stats were restricted to genic regions only, where alignments are typically o…
Votes
Using edgeR or DESeq2 to analyze allele-specific expression?
Answer: DESeq2 design for haplotype MPRA
Answer: Failure to download resources (MeSHDb) from AnnotationHub
Answer: Failure to download resources (MeSHDb) from AnnotationHub
Answer: Suppress warning in RHDF5 write
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