Showing : affyplm • reset
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qc
Survival Biobase genefilter affy affydata affyPLM simpleaffy affyio Survival Biobase
updated 19.5 years ago by 68k • written 19.5 years ago by ▴ 10
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1.6k
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[R] problem loading affycoretools - solved!
Biobase Ruuid genefilter multtest graph limma gcrma matchprobes affyPLM RBGL simpleaffy
updated 19.5 years ago by ★ 7.4k • written 19.5 years ago by ★ 2.2k
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median of the NUSE value
cdf affy gcrma affyPLM affyio cdf affy gcrma affyPLM affyio
updated 19.7 years ago by ★ 1.2k • written 19.7 years ago by ▴ 270
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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 19.7 years ago by ▴ 50 • written 19.7 years ago by ▴ 20
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Why mm's changing after bg.adjust.gcrma?
drosgenome1 cdf Biobase reposTools affy gcrma affyPLM simpleaffy affyQCReport affyio cdf
19.7 years ago Jenny Drnevich ★ 2.2k
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952
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affyPLM QC Assessment problem
affy affyPLM affy affyPLM
19.7 years ago Tan, Ruimin ▴ 50
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1.0k
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affyPLM QC
affy affyPLM affy affyPLM
19.7 years ago Tan, Ruimin ▴ 50
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696
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Sam always wants more observations
probe Biobase affy affyPLM probe Biobase affy affyPLM
19.8 years ago Charles Crane ▴ 30
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8
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2.7k
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Biological replication (was RNA degradation problem)
Normalization probe affy affyPLM Normalization probe affy affyPLM
20.1 years ago • updated 20.0 years ago Naomi Altman ★ 6.0k
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RNA degradation problem
Normalization affy limma affyPLM PROcess Normalization affy limma affyPLM PROcess
updated 20.1 years ago by ▴ 810 • written 20.1 years ago by ▴ 940
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missing function in duplicateCorrelation?
Biobase affy affydata limma affyPLM Biobase affy affydata limma affyPLM
20.1 years ago Jenny Drnevich ★ 2.2k
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MAplot in affyPLM library
affyPLM affyPLM
20.2 years ago Simon Lin ▴ 270
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3
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1.6k
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LIMMA No residual using rmaPLM
Preprocessing affyPLM Preprocessing affyPLM
updated 20.4 years ago by 53k • written 20.4 years ago by ▴ 270
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6
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1.7k
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What wrong with my data using LIMMA
Microarray affy limma affyPLM Microarray affy limma affyPLM
updated 20.4 years ago by ★ 1.8k • written 20.4 years ago by 53k
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940
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Limma using all probes on Affy chip
Normalization probe affy limma affyPLM Normalization probe affy limma affyPLM
20.5 years ago Gordon Smyth 53k
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NA values
Normalization Cancer limma gcrma affyPLM limmaGUI plier Normalization Cancer limma gcrma
20.6 years ago Brooke-Powell, Elizabeth ▴ 170
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1.4k
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AffyPLM
affyPLM affyPLM
20.6 years ago lucia ¿? ▴ 50
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3
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1.2k
views
Error messages in affylmGUI on PC with respect to plotting
limma affyPLM affylmGUI limma affyPLM affylmGUI
20.6 years ago Seth Falcon ★ 7.4k
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991
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Error messages in affylmGUI on PC with respect to plotting
Cancer limma affyPLM affylmGUI Cancer limma affyPLM affylmGUI
20.6 years ago Richard Friedman ★ 2.0k
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RMA for bad chips
Microarray Normalization affyPLM Microarray Normalization affyPLM
20.6 years ago James W. MacDonald 68k
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Re: Use of RMA in increasingly-sized datasets
Microarray affyPLM Microarray affyPLM
20.7 years ago Swati Ranade ▴ 60
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1.6k
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Re: how to evaluate the arrays quality?
GO affy affyPLM GO affy affyPLM
updated 20.7 years ago by ▴ 110 • written 20.7 years ago by ▴ 350
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1.3k
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remove probes - code
cdf probe affy gcrma affyPLM cdf probe affy gcrma affyPLM
20.8 years ago Ariel Chernomoretz ▴ 380
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1.2k
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sanity check: p-value from RMA expression estimates
Normalization probe affy affyPLM Normalization probe affy affyPLM
21.0 years ago Reiner Schulz ▴ 20
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sanity check: recipe for p-value from RMA expression estimates
Normalization probe affy affyPLM Normalization probe affy affyPLM
21.0 years ago Reiner Schulz ▴ 20
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1.4k
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Problems with packages: annaffy, GO, KEGG, golubEsets
GO edd annaffy affyPLM GO edd annaffy affyPLM
updated 21.1 years ago by ★ 5.5k • written 21.1 years ago by ▴ 10
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3
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1.6k
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Install of 1.5 Packages fails
GO edd genefilter annaffy affyPLM marray GO edd genefilter annaffy affyPLM marray
updated 21.3 years ago by ★ 5.5k • written 21.3 years ago by ★ 1.7k
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gregmisc package-problems with BioC latest release?
Biobase annotate edd genefilter geneplotter ROC limma siggenes affyPLM marray Biobase
updated 21.3 years ago by ★ 7.4k • written 21.3 years ago by ▴ 130
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936
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reference on package affyPLM, fitPLM
affyPLM affyPLM
21.3 years ago Fangxin Hong ▴ 810
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1
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1.6k
views
affy package in MacOSX
affy affydata matchprobes affyPLM affy affydata matchprobes affyPLM
updated 21.6 years ago by ▴ 1000 • written 21.6 years ago by ▴ 60
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853
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Platform independent compiler switches - affyPLM problem
affyPLM affyPLM
21.6 years ago Claudio Lottaz ▴ 110
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0
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837
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Chip art from affyPLM
affyPLM affyPLM
21.7 years ago Ben Bolstad ★ 1.1k
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1.8k
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Bioconductor 1.4 released
Proteomics Annotation Normalization GO Cancer CGH pamr gcrma gpls affyPLM webbioc bim
updated 21.7 years ago by ★ 13k • written 21.7 years ago by ▴ 810
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815
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using fitPLM weights in limma analysis
affy limma affyPLM affy limma affyPLM
21.7 years ago Tom Price ▴ 20
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Interpretation of output of AffyRNAdeg and hist commands
Microarray Regression Cancer affyPLM Microarray Regression Cancer affyPLM
21.8 years ago James W. MacDonald 68k
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Re: trouble installing "affy" package
Annotation GO Preprocessing Biobase affy affyPLM Annotation GO Preprocessing Biobase
21.9 years ago Debjani Bhowmick ▴ 30
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AffyPLM
affyPLM affyPLM
21.9 years ago Arne.Muller@aventis.com ▴ 620
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Quantile Normalization on mice data
Normalization Clustering probe affyPLM Normalization Clustering probe affyPLM
21.9 years ago Arne.Muller@aventis.com ▴ 620
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1.2k
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affyPLM interpretation
affyPLM DOSE affyPLM DOSE
22.0 years ago Arne.Muller@aventis.com ▴ 620
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2
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1.4k
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AffyPLM
affyPLM affyPLM
updated 22.0 years ago by ▴ 940 • written 22.0 years ago by ▴ 50
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0
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1.1k
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Quantile Normalization on mice data
affyPLM affyPLM
22.0 years ago Yen Lin Chia ▴ 50
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0
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1.5k
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affy packages on Linux doesn't get installed
DynDoc tkWidgets affy affyPLM DynDoc tkWidgets affy affyPLM
22.2 years ago juliab@stat.berkeley.edu ▴ 10
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1.0k
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Win32 packages
Ruuid rhdf5 affyPLM RdbiPgSQL Ruuid rhdf5 affyPLM RdbiPgSQL
22.3 years ago Jeff Gentry ★ 3.9k
93 results • Page 2 of 2
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Comment: Error message that there is no package called Biobase by DamionLedner99 • 0
thanks for sharing!!! https://cran.r-project.org/
Comment: msmsTests, inconsistent sign between lFC.Av and LogFC by Ben • 0
Continued here due to posting difficulties: Extract from the results table: ``` Inhibitor Vehicle lFC.Av LogFC ... F1 0.0 27…
Answer: DESeq2 for 16S rRNA Analysis by James W. MacDonald 68k
The Wald test is only meant for comparison of two groups at a time, so it depends on what you mean by 'analyze across multiple groups at a …
Comment: MetaDE.pvalue: Error in xj[i]: invalid subscript type 'list' by varying.mastodon.isyn • 0
Oh, that error! I remember wrestling with that one for hours when I was first learning Python. Turns out I was trying to use a list itself …
Comment: Confirm that OpenStats will not be archived (pryr dependency) by Marina • 0
Thank you!
Votes
Comment: Are transformed values from rlog /vst log2 normalized counts?
Answer: Are transformed values from rlog /vst log2 normalized counts?
A: DESeq2 normalization vs VST vs rlog
Answer: How to directly decet the outlier samples (libraries) in EdgeR pipeline
Answer: Confused about the CPM and TMM normalization in edgeR
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