Showing : vsn • reset
0
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8
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2.0k
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AnnBuilder and Kegg
Pathways GO Survival Cancer Organism annotate affydata vsn AnnBuilder globaltest GO vsn
updated 17.4 years ago by ▴ 190 • written 17.5 years ago by ★ 2.9k
0
votes
6
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2.5k
views
how to use negative controls to obtain scale and offset parameters then to normalize the whole protein microarray data by vsn method
vsn protein microarray normalization scale and offset parameters
8.7 years ago • updated 8.6 years ago guojiegina • 0
0
votes
9
replies
1.5k
views
P calls (VSN and RMA)
affy vsn affy vsn
updated 20.3 years ago by ▴ 20 • written 20.3 years ago by ▴ 360
0
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4
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1.3k
views
Error in load VSN library
vsn vsn
updated 20.5 years ago by 65k • written 20.5 years ago by ▴ 770
0
votes
11
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3.0k
views
Very low P-values in limma
miRNA Microarray Normalization GO vsn limma microRNA miRNA Microarray Normalization GO
updated 14.5 years ago by ★ 1.3k • written 14.5 years ago by 50k
0
votes
5
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1.6k
views
getBioC v1.2.22 & [R] v1.6.2
annotate edd genefilter geneplotter rhdf5 multtest ROC tkWidgets reposTools affy vsn
updated 21.1 years ago by ★ 3.9k • written 21.1 years ago by ▴ 70
0
votes
4
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1.4k
views
Re: technical replicates (again!): a summary
Microarray GO Cancer vsn Microarray GO Cancer vsn
updated 20.1 years ago by ★ 1.1k • written 20.1 years ago by 50k
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3
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2.6k
views
Inherits(x,"data.frame") error in SamR
Microarray Normalization Preprocessing Bayesian Clustering TimeCourse Cancer affy vsn LPE
18.2 years ago McGee, Monnie ▴ 300
0
votes
4
replies
1.1k
views
VSN 2.2
Normalization vsn Normalization vsn
updated 17.0 years ago by ★ 13k • written 17.0 years ago by ▴ 330
0
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2
replies
1.1k
views
vsn procedure error
vsn vsn
updated 19.9 years ago by ▴ 360 • written 19.9 years ago by ▴ 110
1
vote
5
replies
1.5k
views
normalization of a miRNA microarray
normalization vsn eximir microarray miRNA
updated 8.6 years ago by ★ 13k • written 8.6 years ago by ▴ 50
0
votes
2
replies
1.4k
views
vsn on log2 transformed data?
vsn vsn
updated 17.9 years ago by ★ 13k • written 17.9 years ago by ▴ 50
0
votes
4
replies
1.1k
views
VSN exclusion of probes
probe vsn oligo probe vsn oligo
updated 17.4 years ago by ★ 13k • written 17.4 years ago by ▴ 330
0
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3
replies
1.1k
views
problem with vsn and affy data...
affy vsn affy vsn
updated 21.4 years ago by ★ 1.0k • written 21.4 years ago by ▴ 70
0
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6
replies
1.7k
views
RMA vs VSN
Preprocessing vsn Preprocessing vsn
19.9 years ago Roger Vallejo ▴ 120
0
votes
2
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1.0k
views
normalizeQuantiles : log2 or not??
Normalization vsn Normalization vsn
19.2 years ago Marcelo Luiz de Laia ▴ 770
3
votes
2
replies
5.6k
views
problem installing "vsn" on debian... gcc: error: unrecognized command line option -fstack-protector-strong
install vsn gcc debian
9.2 years ago regcl • 0
7
votes
3
replies
4.3k
views
VOOM vs VSN vs log2 to transform proteome data before LIMMA analysis
r limma voom vsn
updated 17 months ago by 50k • written 5.2 years ago by ▴ 70
0
votes
2
replies
1.8k
views
technical replicates (again!): a summary
GO Cancer vsn GO Cancer vsn
updated 20.1 years ago by ★ 6.0k • written 20.1 years ago by ★ 1.1k
0
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2
replies
1.3k
views
normalize.AffyBatch.vsn not expressed in vsn
software error vsn affy
7.4 years ago Claudio Lottaz ▴ 40
0
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7
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1.5k
views
Different Normalizations
vsn vsn
updated 20.2 years ago by ▴ 30 • written 20.2 years ago by ▴ 130
0
votes
3
replies
1.3k
views
vsn in limma or marray/arrayMagic
Normalization vsn limma marray Normalization vsn limma marray
19.3 years ago A.E.Schiel@lumc.nl ▴ 100
0
votes
2
replies
1.5k
views
vsn and oligo (or xps?) packages for GeneST expression arrays
vsn oligo xps vsn oligo xps
updated 14.3 years ago by ★ 3.9k • written 14.3 years ago by ▴ 270
0
votes
2
replies
1.6k
views
Can't load annotations with lumi
Microarray OneChannel Annotation Normalization probe Biobase annotate genefilter affy vsn
updated 15.5 years ago by ★ 1.2k • written 15.5 years ago by ▴ 280
0
votes
2
replies
1.6k
views
MA plots + dye swap
Normalization vsn limma Normalization vsn limma
updated 14.3 years ago by ▴ 340 • written 14.3 years ago by ★ 3.9k
0
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4
replies
1.3k
views
Normalization of 2 color Nimblegen array
vsn vsn
updated 18.1 years ago by ▴ 60 • written 18.1 years ago by ▴ 490
0
votes
3
replies
969
views
quality data check
affy vsn limma affy vsn limma
updated 19.0 years ago by 21k • written 19.0 years ago by ▴ 770
0
votes
3
replies
1.5k
views
how to normalize by columns
Normalization affy vsn Normalization affy vsn
updated 18.9 years ago by 50k • written 18.9 years ago by ▴ 40
0
votes
2
replies
1.2k
views
Problems encountered using affy in R
Biobase annotate genefilter multtest ROC tkWidgets affy vsn Biobase annotate genefilter
updated 21.2 years ago by 6.7k • written 21.2 years ago by ▴ 20
0
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2
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1.1k
views
vsm2
Survival geneplotter affy vsn limma affyio Survival geneplotter affy vsn limma affyio
updated 16.6 years ago by ★ 13k • written 16.6 years ago by ▴ 70
0
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8
replies
3.2k
views
Reading Agilent files using read.maimages
Survival DynDoc genefilter tkWidgets affy vsn marray convert ArrayExpress Survival affy
updated 16.7 years ago by ▴ 20 • written 16.7 years ago by ▴ 100
5
votes
6
replies
6.3k
views
proper transformation for differential expression in normalized log expression data
tcga rnaseq deseq2 vsn edger
updated 9.3 years ago by 50k • written 9.3 years ago by • 0
0
votes
1
reply
819
views
Release 1.4 - packages missing?
GO reposTools vsn GO reposTools vsn
updated 20.0 years ago by ★ 3.9k • written 20.0 years ago by ▴ 110
0
votes
1
reply
690
views
vsn and RMA-affy ...?
Normalization affy vsn Normalization affy vsn
updated 17.9 years ago by ★ 13k • written 17.9 years ago by ▴ 310
0
votes
1
reply
692
views
passing marrayRaw data to VSN
vsn vsn
updated 21.1 years ago by ★ 13k • written 21.1 years ago by ▴ 20
0
votes
1
reply
996
views
data transformation
Normalization vsn codelink Normalization vsn codelink
updated 20.1 years ago by ★ 13k • written 20.1 years ago by ▴ 10
0
votes
4
replies
1.2k
views
mas 5.0 presence calls
Microarray Normalization Cancer affy vsn Microarray Normalization Cancer affy vsn
updated 21.3 years ago by ▴ 220 • written 21.3 years ago by ★ 1.4k
0
votes
1
reply
988
views
problem with createBeadSummaryData
Normalization vsn Normalization vsn
updated 15.2 years ago by ★ 1.1k • written 15.2 years ago by ▴ 630
0
votes
2
replies
818
views
Error loading some BioC packages !
vsn vsn
updated 19.0 years ago by ★ 7.4k • written 19.0 years ago by ▴ 540
0
votes
2
replies
1.1k
views
help in arrayMagic?
vsn vsn
updated 19.1 years ago by ▴ 40 • written 19.1 years ago by ▴ 30
0
votes
1
reply
695
views
vsn and affy
Normalization affy vsn Normalization affy vsn
updated 20.3 years ago by 65k • written 20.3 years ago by ▴ 620
0
votes
1
reply
962
views
Normalization in davidTiling demo
Normalization GO Survival genefilter geneplotter affy vsn tilingArray affyio GO Survival
updated 17.2 years ago by ★ 13k • written 17.2 years ago by ★ 1.3k
0
votes
1
reply
1.2k
views
normalizaton between studies
Normalization vsn DOSE Normalization vsn DOSE
updated 19.4 years ago by ▴ 10 • written 19.4 years ago by ▴ 620
0
votes
2
replies
842
views
Creating an new exprSet
vsn vsn
updated 20.5 years ago by ★ 2.3k • written 20.5 years ago by ▴ 770
0
votes
3
replies
960
views
VSN error : 'ny' does not seem to be resulting from vsn
vsn vsn
updated 19.5 years ago by ★ 13k • written 19.5 years ago by ★ 1.1k
0
votes
3
replies
1.1k
views
problem with expresso()
affy vsn affy vsn
updated 21.3 years ago by ★ 13k • written 21.3 years ago by ▴ 70
0
votes
1
reply
907
views
Help to analyse a complex experiment
Genetics Normalization vsn limma Genetics Normalization vsn limma
updated 18.3 years ago by ★ 6.0k • written 18.3 years ago by ▴ 770
0
votes
1
reply
884
views
VSN combined with RMA
Normalization vsn Normalization vsn
updated 19.8 years ago by ★ 2.3k • written 19.8 years ago by ▴ 90
0
votes
1
reply
1.2k
views
Normalization Recommendations- severe biological variation (from the digest)
Normalization vsn plier Normalization vsn plier
updated 15.9 years ago by ★ 6.0k • written 15.9 years ago by ▴ 20
0
votes
1
reply
941
views
number of affy-chips needed to fit rma model
vsn vsn
updated 19.8 years ago by ★ 2.3k • written 19.8 years ago by ▴ 430
50 results • Page 1 of 1
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Replies
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 …
Comment: Help with error using camera() in limma by James W. MacDonald 65k
Again, this is where you need to read the help page and try to diagnose. It says ``` index: an index vector or a list of index vectors. …
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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