Showing : Lumi • reset
6
votes
3
replies
1.4k
views
GEOquery: preprocessing log of imported data
GEOquery microarray lumi affy limma
updated 3.9 years ago by 21k • written 3.9 years ago by ▴ 40
4
votes
5
replies
1.8k
views
Can't install 'lumi'
lumi
updated 7.5 years ago by 25k • written 7.5 years ago by ▴ 10
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
3
votes
12
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6.2k
views
packages installation problem
limma Rqc beadarray Lumi
updated 8.2 years ago by ▴ 70 • written 8.2 years ago by • 0
2
votes
1
reply
1.4k
views
Differential Expression Analysis
differential gene expression microarray lumi illumina
updated 7.1 years ago by 65k • written 7.1 years ago by • 0
2
votes
20
replies
10k
views
problem loading lumi package, Error : object ‘sqliteQuickSQL’ is not exported by 'namespace:RSQLite'
lumi
updated 9.0 years ago by • 0 • written 9.5 years ago by ▴ 10
2
votes
4
replies
1.6k
views
read bead-level data directly by lumi
bead-level GEO lumi
updated 8.1 years ago by ★ 6.5k • written 8.1 years ago by • 0
2
votes
2
replies
2.0k
views
Lumi - Can't write to pData Slot
lumi
updated 8.8 years ago by 25k • written 8.8 years ago by ▴ 370
2
votes
1
reply
983
views
lumi: Importing Methylation EPIC IDAT files
lumi EPIC Methylation
4.0 years ago Zach Roe ▴ 10
2
votes
4
replies
2.6k
views
Problem in installing Bioconductor packages due to "IRanges"
lumi methylumi methyAnalysis
6.3 years ago topijush ▴ 10
2
votes
5
replies
2.3k
views
Errors in Processing GSE36411_non-normalized.txt file of Illumina data using lumi Package and limma package
limma lumi illumina gene expression data
updated 2.4 years ago by ▴ 10 • written 5.9 years ago by • 0
2
votes
7
replies
2.6k
views
Removing samples from S4 object (in lumi)
lumi S4
9.2 years ago Chi Hong • 0
2
votes
8
replies
3.6k
views
Problems importing Illumina raw data with lumi R package
Illumina Human HT-12 v4 lumi limma microarray
updated 8.9 years ago by 50k • written 8.9 years ago by ▴ 830
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
4
replies
1.7k
views
download data from GEO Illumina platform
lumi illumina human ht-12 v4
updated 5.4 years ago by ▴ 50 • written 5.4 years ago by • 0
1
vote
3
replies
2.4k
views
Reading Illumina HT12 V4.0 Data from GEO into Lumi
lumi geoquery geo illumina human ht-12 v4 gene expression
updated 6.5 years ago by 50k • written 6.5 years ago by • 0
1
vote
2
replies
1.5k
views
lumi package fails to load because of a missing dependency (bumphunter)
lumi methylumi
updated 5.5 years ago by ▴ 50 • written 5.5 years ago by ▴ 30
1
vote
2
replies
2.0k
views
Further analysis of methylation microarrays data (Illumina - idat) after reading by illuminaio package
limma lumi illuminaio illimina 450k methylation microarray
8.1 years ago Adam • 0
1
vote
10
replies
3.0k
views
minfi, lumi, methylumi, DMRcate installation error
minfi lumi methylumi dmrcate illuminahumanmethylation450kanno.ilmn12.hg19
updated 7.1 years ago by ▴ 170 • written 7.1 years ago by ▴ 10
1
vote
4
replies
1.8k
views
Trouble loading 'lumi' package
lumi illumina hdf5array
updated 5.7 years ago by 65k • written 5.7 years ago by ▴ 30
1
vote
2
replies
2.1k
views
unable to find Lumi package in R
lumi
updated 8.2 years ago by ★ 13k • written 8.2 years ago by • 0
1
vote
3
replies
1.8k
views
lumiR.batch fails after upgrade to R v3.2.0 and lumi v2.20.0
lumi
9.0 years ago Jeremy Martinson • 0
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
1
reply
1.8k
views
Coercion of MethyLumiSet to MethyLumiR changes raw methylation values?
Normalization probe lumi Normalization probe lumi
updated 9.2 years ago by • 0 • written 10.1 years ago by ▴ 20
1
vote
6
replies
1.9k
views
minfi and lumi not available for version 3.3.2
minfi lumi
updated 7.2 years ago by 25k • written 7.2 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 11.0 years ago by ★ 13k
0
votes
0
replies
940
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
1
reply
926
views
Problems with lumiR/lumiMouseV1
Annotation lumiMouseV1 annotate lumi Annotation lumiMouseV1 annotate lumi
16.8 years ago • updated 16.7 years ago Cei Abreu-Goodger ▴ 830
0
votes
1
reply
1.1k
views
RNA degradation for Illumina
affy beadarray lumi affy beadarray lumi
updated 16.7 years ago by ★ 3.6k • written 16.7 years ago by ▴ 110
0
votes
1
reply
876
views
lty argument not recognised in plot function]
lumi lumi
updated 16.7 years ago by ▴ 410 • written 16.7 years ago by ★ 1.2k
0
votes
0
replies
958
views
lumi - limma - geneSymbol and geneName N/A
limma lumi limma lumi
11.8 years ago Paolo Kunderfranco ▴ 350
0
votes
1
reply
935
views
Illumina annotation and lumi
Annotation lumi Annotation lumi
updated 15.5 years ago by ▴ 50 • written 15.6 years ago by ▴ 50
0
votes
6
replies
1.3k
views
lumiT VST error
lumi lumi
updated 16.8 years ago by ★ 1.2k • written 16.8 years ago by ▴ 40
0
votes
5
replies
1.4k
views
Manufacturer ids in lumiHumanV1
Annotation lumiHumanV1 annotate lumi Annotation lumiHumanV1 annotate lumi
updated 16.8 years ago by ★ 1.2k • written 16.8 years ago by ▴ 830
0
votes
5
replies
1.4k
views
lumi, Illumina Methylation 450k, and robust methylation calls
lumi lumi
12.9 years ago Pan Du ▴ 440
0
votes
0
replies
858
views
sampleinfo and lumiN of lumi package
Normalization lumi Normalization lumi
16.9 years ago Pan Du ★ 1.2k
0
votes
0
replies
651
views
lumi question, and a bug
lumi lumi
16.9 years ago Michal Blazejczyk ▴ 320
0
votes
1
reply
1.0k
views
lumi, Illumina Methylation 450k, and robust methylation calls
lumi lumi
updated 12.9 years ago by ▴ 620 • written 12.9 years ago by ▴ 270
0
votes
3
replies
1.4k
views
How to convert Illumina ProbeIDs to nuIDs without nuID indexed annotation libraries?
Annotation GO convert lumi Annotation GO convert lumi
updated 15.6 years ago by ★ 1.2k • written 15.6 years ago by ▴ 150
0
votes
0
replies
875
views
problems with lumi
Microarray Normalization lumi Microarray Normalization lumi
17.2 years ago Anand C. Patel ▴ 100
0
votes
0
replies
769
views
Bioconductor Digest, Vol 52, Issue 18
Normalization lumi Normalization lumi
16.9 years ago Simon Lin ▴ 270
0
votes
0
replies
1.0k
views
how to cite "lumi"?
Microarray Annotation Normalization Cancer lumi Microarray Annotation Normalization Cancer
16.1 years ago Pan Du ★ 1.2k
0
votes
1
reply
1.4k
views
Lumi: filtering and batch effects (combat)
Normalization lumi Normalization lumi
updated 16.2 years ago by ★ 1.2k • written 16.2 years ago by ▴ 30
0
votes
1
reply
722
views
method "[" for class LumiBatch
lumi lumi
updated 16.9 years ago by ★ 1.2k • written 16.9 years ago by ▴ 160
0
votes
0
replies
606
views
info su illumina
Genetics Annotation GO lumi Genetics Annotation GO lumi
16.1 years ago Pan Du ★ 1.2k
0
votes
0
replies
854
views
Illumina annotation human v3
Annotation lumi Annotation lumi
16.0 years ago Pan Du ★ 1.2k
0
votes
1
reply
1.3k
views
About Illumina annotation packages lumixxxAll.db
Annotation lumiMouseV1 probe convert lumi Annotation lumiMouseV1 probe convert lumi
16.0 years ago Pan Du ★ 1.2k
0
votes
1
reply
1.1k
views
new lumi and miRNA array data
Microarray Normalization lumi BRAIN Microarray Normalization lumi BRAIN
updated 16.0 years ago by ★ 13k • written 16.0 years ago by ▴ 830
0
votes
1
reply
820
views
lumi annotation for Mouse Ref8 v1.1
lumi lumi
updated 16.0 years ago by ★ 1.2k • written 16.0 years ago by ▴ 70
0
votes
3
replies
1.0k
views
lumi and plotHousekeepingGene
Cancer lumi Cancer lumi
updated 12.9 years ago by ▴ 440 • written 12.9 years ago by ▴ 740
50 results • Page 1 of 1
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Answer: SGSeq: moving toward diffex from SGSeq analysis by Leonard Goldstein ▴ 200
`vid` and `eid` are unique identifiers for splice variants and splicing events respectively. They are analogous to exon bin and gene identi…
Comment: Help with error using camera() in limma by Chris • 0
Thanks James! I fixed the error. I try gene symbol instead of entrez and it worked.
Comment: limma for gene expression analysis with big and unbalanced sample size by XW • 0
Could you explain more about the comment "there are no problems with using limma for unbalanced data sets" ? thanks.
Comment: Limma, eBayes different sample size of groups and adjustment by XW • 0
Could you explain more about how the analysis self-correct the different sample sizes when calling DEGs in limma? Thanks
Answer: How do I select a GC file (gc.wig)? (How to determine the inputdata of HMMcopy) by James W. MacDonald 65k
The section of the vignette that is *directly above the one you quote* says that you can use the HMMcopy utils to do all three things. And …
Votes
C: How to establish a subset from TxDb.Hsapiens.UCSC.hg38.knownGene DB
C: Extremely big genes in annotation TxDb packages
Make custom Txdb class objects from Txdb
Comment: Help with error using camera() in limma
Answer: Help with error using camera() in limma
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Scholar to James W. MacDonald 65k
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