Showing : affyPLM • reset
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affyPLM boxplots for subset of samples
affyPLM
updated 7.8 years ago by 65k • written 7.8 years ago by ▴ 360
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1
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2.3k
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Computing NUSE and RLE scores
affyPLM RLE NUSE
updated 9.3 years ago by 21k • written 9.3 years ago by ▴ 10
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1.2k
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affy packages on Linux doesn't get installed
DynDoc tkWidgets affy affyPLM DynDoc tkWidgets affy affyPLM
20.5 years ago juliab@stat.berkeley.edu ▴ 10
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849
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Quantile Normalization on mice data
affyPLM affyPLM
20.3 years ago Yen Lin Chia ▴ 50
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2
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1.1k
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AffyPLM
affyPLM affyPLM
updated 20.2 years ago by ▴ 940 • written 20.3 years ago by ▴ 50
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0
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927
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affyPLM interpretation
affyPLM DOSE affyPLM DOSE
20.2 years ago Arne.Muller@aventis.com ▴ 620
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0
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922
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Quantile Normalization on mice data
Normalization Clustering probe affyPLM Normalization Clustering probe affyPLM
20.2 years ago Arne.Muller@aventis.com ▴ 620
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0
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1.1k
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AffyPLM
affyPLM affyPLM
20.2 years ago Arne.Muller@aventis.com ▴ 620
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0
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1.0k
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Re: trouble installing "affy" package
Annotation GO Preprocessing Biobase affy affyPLM Annotation GO Preprocessing Biobase
20.1 years ago Debjani Bhowmick ▴ 30
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0
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895
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Interpretation of output of AffyRNAdeg and hist commands
Microarray Regression Cancer affyPLM Microarray Regression Cancer affyPLM
20.0 years ago James W. MacDonald 65k
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0
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638
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using fitPLM weights in limma analysis
affy limma affyPLM affy limma affyPLM
20.0 years ago Tom Price ▴ 20
0
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1
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1.4k
views
Bioconductor 1.4 released
Proteomics Annotation Normalization GO Cancer CGH pamr gcrma gpls affyPLM webbioc bim
updated 20.0 years ago by ★ 13k • written 20.0 years ago by ▴ 810
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632
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Chip art from affyPLM
affyPLM affyPLM
20.0 years ago Ben Bolstad ★ 1.1k
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0
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618
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Platform independent compiler switches - affyPLM problem
affyPLM affyPLM
19.9 years ago Claudio Lottaz ▴ 110
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1
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1.1k
views
affy package in MacOSX
affy affydata matchprobes affyPLM affy affydata matchprobes affyPLM
updated 19.8 years ago by ▴ 1000 • written 19.8 years ago by ▴ 60
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1
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715
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reference on package affyPLM, fitPLM
affyPLM affyPLM
19.6 years ago Fangxin Hong ▴ 810
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2
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1.3k
views
gregmisc package-problems with BioC latest release?
Biobase annotate edd genefilter geneplotter ROC limma siggenes affyPLM marray Biobase
updated 19.5 years ago by ★ 7.4k • written 19.5 years ago by ▴ 130
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3
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1.2k
views
Install of 1.5 Packages fails
GO edd genefilter annaffy affyPLM marray GO edd genefilter annaffy affyPLM marray
updated 19.5 years ago by ★ 5.5k • written 19.5 years ago by ★ 1.7k
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1
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1.1k
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Problems with packages: annaffy, GO, KEGG, golubEsets
GO edd annaffy affyPLM GO edd annaffy affyPLM
updated 19.4 years ago by ★ 5.5k • written 19.4 years ago by ▴ 10
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0
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924
views
sanity check: recipe for p-value from RMA expression estimates
Normalization probe affy affyPLM Normalization probe affy affyPLM
19.2 years ago Reiner Schulz ▴ 20
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0
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898
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sanity check: p-value from RMA expression estimates
Normalization probe affy affyPLM Normalization probe affy affyPLM
19.2 years ago Reiner Schulz ▴ 20
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0
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1.0k
views
remove probes - code
cdf probe affy gcrma affyPLM cdf probe affy gcrma affyPLM
19.1 years ago Ariel Chernomoretz ▴ 380
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2
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1.2k
views
Re: how to evaluate the arrays quality?
GO affy affyPLM GO affy affyPLM
updated 18.9 years ago by ▴ 110 • written 18.9 years ago by ▴ 350
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0
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548
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Re: Use of RMA in increasingly-sized datasets
Microarray affyPLM Microarray affyPLM
18.9 years ago Swati Ranade ▴ 60
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0
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735
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RMA for bad chips
Microarray Normalization affyPLM Microarray Normalization affyPLM
18.9 years ago James W. MacDonald 65k
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3
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1.1k
views
AffyPLM
affyPLM affyPLM
18.8 years ago lucia ¿? ▴ 50
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0
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793
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Error messages in affylmGUI on PC with respect to plotting
Cancer limma affyPLM affylmGUI Cancer limma affyPLM affylmGUI
18.8 years ago Richard Friedman ★ 2.0k
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3
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916
views
Error messages in affylmGUI on PC with respect to plotting
limma affyPLM affylmGUI limma affyPLM affylmGUI
18.8 years ago Seth Falcon ★ 7.4k
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0
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1.3k
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NA values
Normalization Cancer limma gcrma affyPLM limmaGUI plier Normalization Cancer limma gcrma
18.8 years ago Brooke-Powell, Elizabeth ▴ 170
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0
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750
views
Limma using all probes on Affy chip
Normalization probe affy limma affyPLM Normalization probe affy limma affyPLM
18.8 years ago Gordon Smyth 50k
0
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6
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1.1k
views
What wrong with my data using LIMMA
Microarray affy limma affyPLM Microarray affy limma affyPLM
updated 18.7 years ago by ★ 1.8k • written 18.7 years ago by 50k
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3
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1.2k
views
LIMMA No residual using rmaPLM
Preprocessing affyPLM Preprocessing affyPLM
updated 18.7 years ago by 50k • written 18.7 years ago by ▴ 270
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0
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559
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MAplot in affyPLM library
affyPLM affyPLM
18.5 years ago Simon Lin ▴ 270
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0
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909
views
missing function in duplicateCorrelation?
Biobase affy affydata limma affyPLM Biobase affy affydata limma affyPLM
18.4 years ago Jenny Drnevich ★ 2.2k
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1
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1.1k
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RNA degradation problem
Normalization affy limma affyPLM PROcess Normalization affy limma affyPLM PROcess
updated 18.3 years ago by ▴ 810 • written 18.3 years ago by ▴ 940
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8
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1.9k
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Biological replication (was RNA degradation problem)
Normalization probe affy affyPLM Normalization probe affy affyPLM
18.3 years ago Naomi Altman ★ 6.0k
0
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0
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888
views
Why mm's changing after bg.adjust.gcrma?
drosgenome1 cdf Biobase reposTools affy gcrma affyPLM simpleaffy affyQCReport affyio cdf
18.0 years ago Jenny Drnevich ★ 2.2k
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0
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511
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Sam always wants more observations
probe Biobase affy affyPLM probe Biobase affy affyPLM
18.0 years ago Charles Crane ▴ 30
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0
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797
views
affyPLM QC
affy affyPLM affy affyPLM
18.0 years ago Tan, Ruimin ▴ 50
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0
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733
views
affyPLM QC Assessment problem
affy affyPLM affy affyPLM
18.0 years ago Tan, Ruimin ▴ 50
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2
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1.3k
views
Failure to install specific packages from Bioconductor on a Linux machine running R 2.3.1
affy gcrma matchprobes affyPLM affyio affy gcrma matchprobes affyPLM affyio
updated 17.9 years ago by ▴ 50 • written 17.9 years ago by ▴ 20
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2
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1.1k
views
median of the NUSE value
cdf affy gcrma affyPLM affyio cdf affy gcrma affyPLM affyio
updated 17.9 years ago by ★ 1.2k • written 17.9 years ago by ▴ 270
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1
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1.3k
views
[R] problem loading affycoretools - solved!
Biobase Ruuid genefilter multtest graph limma gcrma matchprobes affyPLM RBGL simpleaffy
updated 17.8 years ago by ★ 7.4k • written 17.8 years ago by ★ 2.2k
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1
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880
views
qc
Survival Biobase genefilter affy affydata affyPLM simpleaffy affyio Survival Biobase
updated 17.7 years ago by 65k • written 17.7 years ago by ▴ 10
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2
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885
views
loading affyPLM with R 2.4.
affyPLM affyPLM
updated 17.7 years ago by ★ 1.2k • written 17.7 years ago by ▴ 20
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0
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938
views
4 replicates, of 3 tissues- one good hyb (2xreps), one bad hyb (2xreps). Best way forward?
qPCR affy affydata vsn limma gcrma matchprobes affyPLM affyio BRAIN qPCR affy affydata
17.7 years ago k. brand ▴ 420
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0
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966
views
method for removing consistent technical bias?
affy affydata vsn limma gcrma matchprobes affyPLM affyio affy affydata vsn limma gcrma
17.6 years ago k. brand ▴ 420
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votes
2
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962
views
normalize.quantiles.robust: how to implement weights for different arrays?
cdf gcrma matchprobes affyPLM affyio cdf gcrma matchprobes affyPLM affyio
updated 17.6 years ago by ★ 6.5k • written 17.6 years ago by ▴ 420
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2
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1.1k
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"normalize.quantiles.robust" produces the SAME intensities from different weights?!
Normalization affydata gcrma matchprobes affyPLM affyio Normalization affydata gcrma
updated 17.6 years ago by ★ 1.2k • written 17.6 years ago by ▴ 420
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2
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2.9k
views
Error in function (classes, fdef, mtable)
cdf genefilter reposTools gcrma matchprobes affyPLM simpleaffy affyio cdf genefilter
updated 17.5 years ago by ★ 7.4k • written 17.5 years ago by ▴ 360
50 results • Page 1 of 1
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Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Poonam • 0
Hi Michael, I have tried what you suggested. I started with methylation loci. I created segment1 and segment2 but how to combine them bec…
Comment: EGSEA usage with microarray data (with vooma)? by Chris • 0
Hi Pekka, I also try EGSEA with microarray data. However, I got this error. Would you please have a suggestion? gsa = egsea.ma(numeric…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Michael Love 42k
> Any suggestions for methylation data segmentation? I think the same segmentation can be used.
Comment: deseq2 results by swbarnes2 ★ 1.3k
Cross-posted https://www.biostars.org/p/9594331/#9594458
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it by Mike Smith ★ 6.5k
The other answers here are all good and demonstrate the issue with floating point comparisons nicely. I'd like to add that your particular…
Votes
A: Volcanoplot with limma - RAW P-values or Adj.P-Values
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Comment: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Answer: minfi latest update for EPIC V2 chip
A: Error in DESeqDataSet : some values in assay are not integers
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