Showing : gcrma • reset
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gcrma on affy xlaevis arrays
GO affy gcrma GO affy gcrma
14.5 years ago Tobias Straub ▴ 10
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3
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1.5k
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Problem using justGCRMA
gcrma gcrma
updated 14.5 years ago by 68k • written 14.5 years ago by ▴ 10
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1.1k
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customCDF name not recognized and switched to Affy CDF
cdf affy gcrma cdf affy gcrma
updated 14.6 years ago by 68k • written 14.6 years ago by ▴ 80
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Creating 2 Gaussian Probability Density Function
gcrma gcrma
updated 14.6 years ago by ▴ 830 • written 14.6 years ago by ▴ 580
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2
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gcrma - u133aaofav2probe error
Microarray gcrma marray Microarray gcrma marray
updated 14.7 years ago by 68k • written 14.7 years ago by ▴ 10
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3
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1.7k
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GCRMA: feature request
GO Regression probe gcrma frma GO Regression probe gcrma frma
updated 14.8 years ago by ▴ 250 • written 14.8 years ago by ★ 4.1k
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Help with GSEA package
hu6800 cdf genefilter multtest affy gcrma siggenes annaffy GSEABase hu6800 cdf multtest
updated 14.9 years ago by 25k • written 14.9 years ago by ▴ 20
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922
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gene expression set using KEGG
gcrma gcrma
updated 15.0 years ago by 25k • written 15.0 years ago by ▴ 170
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10
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2.2k
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Is GCRMA influenced by lexicographical order?
probe gcrma probe gcrma
updated 15.0 years ago by ★ 13k • written 15.0 years ago by ▴ 50
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1
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739
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help with normalization
gcrma gcrma
updated 15.1 years ago by ★ 2.0k • written 15.1 years ago by ▴ 140
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1
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1.2k
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gcrma hugene10st array
gcrma gcrma
updated 15.2 years ago by ▴ 260 • written 15.2 years ago by ▴ 80
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1
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1.6k
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gcrma vs rma
Microarray qPCR probe ROC limma gcrma Microarray qPCR probe ROC limma gcrma
updated 15.2 years ago by ▴ 260 • written 15.2 years ago by ▴ 330
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Different result from gcrma function by using command line gcrma, affylmGUI and oneChannelGUI.
gcrma affylmGUI oneChannelGUI gcrma affylmGUI oneChannelGUI
15.2 years ago Lin Ying ▴ 10
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2
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Problem with gcrma
affy gcrma affy gcrma
updated 15.4 years ago by ▴ 10 • written 15.4 years ago by ▴ 140
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0
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Basic Question about gcrma & exporting to excel > (command not working)
Microarray affy gcrma oligo arrayQualityMetrics DECIPHER Microarray affy gcrma oligo
15.4 years ago Dick Beyer ★ 1.4k
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5
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1.8k
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Imitating Affy's own steps
Microarray Normalization GO Preprocessing gcrma Microarray Normalization GO Preprocessing
updated 15.6 years ago by 68k • written 15.6 years ago by ▴ 120
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4
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1.3k
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GCRMA Normalization Differences between Windows and MAC
Normalization gcrma Normalization gcrma
updated 15.6 years ago by ▴ 260 • written 15.6 years ago by ▴ 10
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1
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964
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Xlaevis probe sequence file for gcRMA not found.
xenopuslaevis probe gcrma xenopuslaevis probe gcrma
updated 15.7 years ago by 68k • written 15.7 years ago by ▴ 20
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1.0k
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FW: Problem in masking individual probes to calculate expression values
cdf probe gcrma cdf probe gcrma
updated 15.7 years ago by ▴ 50 • written 15.7 years ago by ★ 2.0k
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4
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1.4k
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Discrepancy on results from gcrma function and justGCRMA
gcrma GLAD gcrma GLAD
updated 15.8 years ago by 68k • written 15.8 years ago by ★ 2.0k
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2
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1.1k
views
Improvements on GCRMA function
gcrma gcrma
updated 15.8 years ago by ▴ 260 • written 15.8 years ago by ▴ 840
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1
reply
910
views
FW: Problem in masking individual probes to calculate expression values
probe gcrma probe gcrma
updated 15.8 years ago by ★ 2.0k • written 15.8 years ago by ▴ 50
0
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4
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1.2k
views
help needed for GCRMA
gcrma gcrma
updated 15.8 years ago by 68k • written 15.8 years ago by ▴ 50
0
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2
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1.5k
views
Fixing brainarray repository link for mac os x
Annotation GO CustomCDF cdf gcrma Annotation GO CustomCDF cdf gcrma
updated 15.9 years ago by 68k • written 15.9 years ago by ▴ 80
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5
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GCRMA Error
cdf gcrma cdf gcrma
updated 16.0 years ago by ▴ 260 • written 16.0 years ago by ▴ 50
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0
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665
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Discrepancy on results from gcrma function and justGCRMA
gcrma gcrma
16.0 years ago Jin ▴ 10
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0
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963
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Expression values from gcRMA are different than before
gcrma affylmGUI gcrma affylmGUI
16.1 years ago Glyn Bradley ▴ 40
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2
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1.4k
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about citrus chip
probe affy gcrma probe affy gcrma
updated 16.2 years ago by 68k • written 16.2 years ago by ▴ 40
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preprocessing Affymetrix with threestep and expresso
Microarray Normalization Preprocessing affy gcrma Microarray Normalization Preprocessing
updated 16.2 years ago by ★ 3.9k • written 16.2 years ago by ▴ 840
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840
views
Different gcrma output values after upgrade BioC 2.0 -> 2.4
Microarray Normalization GO hgu133plus2 rgu34a probe gcrma Microarray Normalization GO
16.2 years ago Rullmann, J.A.C. Ton ▴ 40
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863
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Different gcrma output values after upgrade BioC 2.0 -> 2.4
probe gcrma probe gcrma
updated 16.2 years ago by ▴ 260 • written 16.2 years ago by ▴ 40
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2
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1.5k
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preprocessing Affymetrix with threestep and expresso
Microarray Normalization Preprocessing gcrma Microarray Normalization Preprocessing gcrma
updated 16.2 years ago by ★ 2.3k • written 16.2 years ago by ▴ 840
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847
views
background correction on PM only: compute.affinities2()
affy gcrma affy gcrma
16.3 years ago Marianne Tuefferd ▴ 20
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1.0k
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gcrma and unable to access brainarray.mbni.med.umich.edu...
GO gcrma GO gcrma
updated 16.5 years ago by 68k • written 16.5 years ago by ★ 1.0k
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justGCRMA problem :(
GO Cancer gcrma matchprobes PROcess affyio GO Cancer gcrma matchprobes PROcess affyio
updated 16.6 years ago by ▴ 20 • written 16.7 years ago by 25k
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affyPLM QC vignette is missing...
probe Biobase affy gcrma matchprobes affyPLM probe Biobase affy gcrma matchprobes
16.7 years ago Jenny Drnevich ★ 2.0k
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justGCRMA problem :(
GO gcrma matchprobes PROcess affyio GO gcrma matchprobes PROcess affyio
16.7 years ago Jacek Nowak ▴ 20
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1.6k
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Group-wise gcrma normalization
Microarray Normalization Clustering zebrafish probe gcrma Microarray Normalization probe
updated 16.7 years ago by ★ 6.5k • written 16.7 years ago by ▴ 30
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GCRMA: error / warning
probe gcrma probe gcrma
updated 16.8 years ago by ▴ 260 • written 16.8 years ago by ★ 4.1k
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3
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1.1k
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discrepancies using different gcRMA
gcrma gcrma
updated 16.9 years ago by ▴ 260 • written 16.9 years ago by ▴ 20
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0
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1.6k
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sd==0 for some probesets when using gcrma
Microarray Proteomics Epigenetics Normalization GO Cancer hgu95av2 affy graph gcrma GO
16.9 years ago Dick Beyer ★ 1.4k
0
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2
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1.3k
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Does old workspace work?
Regression probe gcrma PROcess maanova Regression probe gcrma PROcess maanova
updated 17.0 years ago by ★ 6.5k • written 17.0 years ago by ★ 1.0k
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1.5k
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How to definitely point to local mirror?
gcrma gcrma
updated 17.0 years ago by 16k • written 17.0 years ago by ▴ 170
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722
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Discrepancy on results from gcrma function and justGCRMA
gcrma gcrma
17.0 years ago Jerry ▴ 10
0
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18
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3.5k
views
LPE error caused by gcRMA [Error in var.M.adap[i] <- ifelse(!is.na(var.M.adap[i - 1]), mean(var.M.adap[i + : replacement has length zero]
Cancer gcrma LPE affylmGUI Cancer gcrma LPE affylmGUI
updated 17.0 years ago by ▴ 70 • written 17.0 years ago by ★ 13k
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2
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1.3k
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LPE error caused by gcRMA [Error in var.M.adap[i] <- ifelse(!is.na(var.M.adap[i - 1]), mean(var.M.adap[i + : replacement has length zero]
Cancer gcrma LPE Cancer gcrma LPE
updated 17.0 years ago by ★ 1.6k • written 17.0 years ago by ▴ 70
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1.1k
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spiked controls wrong order on samples wit 2 rounds of amplification normalize with GCRMA
Microarray Cancer affy gcrma affyPLM Microarray Cancer affy gcrma affyPLM
17.1 years ago Richard Friedman ★ 2.0k
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2.4k
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what is the best baseline transformation method before clustering
GO Clustering probe affy gcrma GeneSpring GO Clustering probe affy gcrma GeneSpring
updated 17.1 years ago by 21k • written 17.1 years ago by ▴ 270
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mu11ksuba + gcrma = error
mu11ksuba cdf gcrma mu11ksuba cdf gcrma
17.1 years ago Ido M. Tamir ▴ 150
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installing problem - preprocessCore, affy on linux platform
Biobase genefilter affy vsn gcrma matchprobes preprocessCore Biobase genefilter affy vsn
updated 17.2 years ago by ★ 6.5k • written 17.2 years ago by ▴ 20
406 results • Page 2 of 9
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Answer: "Watched Tags" are being erased rather than updated by shepherl 4.2k
This should now be resolved
Answer: Question about collapsing ASVs by genus level during DESeq2 analysis by Michael Love 43k
I'll just note that microbiome stats folks tend to use other tools than DESeq2. > several ASVs belong to the same genus but are not iden…
Comment: Integration: Paired-end vs healthy single-end from a different source by igkryycpinmshzugby • 0
Yes, Option 1 (technical homogenization) reprocessing paired-end samples as single-end using only R1 is the most defensible approach when l…
Answer: Integration: Paired-end vs healthy single-end from a different source by James W. MacDonald 68k
If by reprocess you mean generate libraries and re-sequence, then that's something you could do. Otherwise the biological and technical dif…
Comment: "Watched Tags" are being erased rather than updated by shepherl 4.2k
I can reproduce this and have opened an issue on the code base https://github.com/Bioconductor/support.bioconductor.org/issues/112
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Bioconductor 3.22 Released!
Bioconductor 3.22 Released!
Comment: "Watched Tags" are being erased rather than updated
Comment: deseq2 filter the low counts
Answer: DESeq2 interactions
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