Showing : Affy • reset
9
votes
8
replies
3.1k
views
LIMMA producing too many significant results
LIMMA limma design matrix affy
updated 9.0 years ago by ★ 13k • written 9.0 years ago by ▴ 30
7
votes
7
replies
2.0k
views
Identify up and down regulated genes in affymetrix data
limma microarray affy
updated 6.7 years ago by ▴ 40 • written 6.7 years ago by • 0
7
votes
8
replies
2.0k
views
Microarray analysis using RMA method using affy, limma
microarray annotation aureus affy
6.2 years ago neranjan007 • 0
6
votes
8
replies
2.2k
views
Gene level analysis of Affymetrix GeneChip Mouse Exon Arrays
affy aroma.affymetrix exon array xps oligo
6.8 years ago Gordon Smyth 50k
6
votes
4
replies
2.3k
views
Alternate expression of splice isoforms on Affy Clariom D assay
alternate expression differential expression affy
updated 7.2 years ago by 65k • written 7.2 years ago by ▴ 20
6
votes
8
replies
1.7k
views
How to find out the genes that changes in expression by using gene level expression data matrix?
limma microarray affy edger
4.8 years ago Jurat Shahidin ▴ 80
6
votes
1
reply
11k
views
How to combine multiple probes representing a single gene?
microarray affy eset
updated 7.2 years ago by 50k • written 7.2 years ago by ▴ 20
6
votes
3
replies
1.3k
views
GEOquery: preprocessing log of imported data
GEOquery microarray lumi affy limma
updated 3.8 years ago by 21k • written 3.8 years ago by ▴ 40
6
votes
5
replies
2.5k
views
install package from local zip file
affy
8.8 years ago Angel ▴ 40
5
votes
8
replies
2.4k
views
how to annotate arrays
affy annotation microarray oligo
updated 3.4 years ago by 65k • written 8.7 years ago by • 0
5
votes
4
replies
1.7k
views
Is there any tutorial to perform Mouse/Human Transcriptome microarrays 1.0 ?
mta10 tutorial affy
updated 8.5 years ago by 65k • written 8.5 years ago by ▴ 40
5
votes
11
replies
2.6k
views
Affymetrix fold change [newbie question]
affy
updated 8.2 years ago by ▴ 360 • written 8.2 years ago by • 0
5
votes
4
replies
3.2k
views
How to use custom cdf "hgu133plus2hsentrezgcdf"?
customcdf affymetrix microarrays hgu133plus2 affy
6.3 years ago rahil ▴ 30
5
votes
9
replies
3.0k
views
Pipeline to analyzing Microarray data set( GSE files from NCBI GEO)
microarray affy
updated 3.8 years ago by ★ 3.9k • written 3.8 years ago by ▴ 30
4
votes
7
replies
1.5k
views
Limma sample groups
microarray limma affy cancer
updated 3.5 years ago by 50k • written 3.5 years ago by • 0
4
votes
3
replies
1.5k
views
MAS 5 package
affy
updated 8.8 years ago by ▴ 830 • written 8.8 years ago by ▴ 40
4
votes
5
replies
1.4k
views
fRMA results different for Windows and Linux
frma expr gene expression data affy
updated 6.0 years ago by 65k • written 6.0 years ago by • 0
4
votes
7
replies
1.6k
views
Microarray data preprocessing and differentially expressed genes
microarray affy limma
updated 7.8 years ago by ▴ 610 • written 7.8 years ago by • 0
4
votes
6
replies
5.2k
views
Proper way to build phenoData object?
limma affy biobase
updated 9.2 years ago by ★ 3.9k • written 9.2 years ago by ▴ 10
3
votes
4
replies
3.3k
views
R Script for selecting differentially expressed genes
limma microarray affy deg
8.6 years ago contato.carlosbau ▴ 10
3
votes
6
replies
2.6k
views
WGCNA normalized CDF to use, WGCNA Intramodular connectivity
wgcna affymetrix microarrays affy
updated 8.7 years ago by ★ 3.0k • written 8.9 years ago by ▴ 30
3
votes
2
replies
1.1k
views
RankProd throws "is.infinite(data)" error for type "S4" for differential expression analysis
rankprod limma affy bioconductor microarray
updated 6.8 years ago by 65k • written 6.8 years ago by ▴ 20
3
votes
15
replies
2.7k
views
Are the p-values supposed to be on the order of 10^-120?
limma affy bioconductor affymetrix
updated 9.5 years ago by 50k • written 9.5 years ago by • 0
3
votes
6
replies
6.3k
views
Error in install.packages: unable to install packages
bioconductor affy
updated 7.4 years ago by ▴ 260 • written 7.4 years ago by • 0
3
votes
5
replies
1.6k
views
Farms/Call.INI using oligo package?
probe affy oligo farms probe affy oligo farms
updated 10.4 years ago by ▴ 210 • written 10.4 years ago by ▴ 270
3
votes
5
replies
1.3k
views
Some doubts about the limma package
limma affy
updated 6.7 years ago by ★ 28k • written 6.7 years ago by ▴ 10
3
votes
1
reply
1.3k
views
Offline loading of BiocInstaller or depending packages and connection timeout
BiocInstaller affy
updated 7.7 years ago by 25k • written 7.7 years ago by ▴ 30
3
votes
8
replies
2.4k
views
Error: 'exprs<-' is not an exported object from 'namespace:affy'
affy limma piano
updated 4.6 years ago by 65k • written 4.6 years ago by • 0
3
votes
4
replies
1.0k
views
gcrma problem with make.cdf.package
gcrma make.cdf.package affy
updated 4.0 years ago by 65k • written 4.0 years ago by ▴ 40
3
votes
2
replies
5.4k
views
run affy package encounts clariomdhumancdf error
affy getCdfInfo(object) CDF environment Clariom_D_Human
updated 5.1 years ago by ★ 3.9k • written 5.1 years ago by • 0
3
votes
2
replies
858
views
issue with hgu95acdf package
affy
updated 4.4 years ago by 25k • written 4.4 years ago by • 0
3
votes
5
replies
1.1k
views
HTA 2.0 Differential expression analysis - design question
limma hta affy annotation
updated 5.0 years ago by 65k • written 5.0 years ago by ▴ 10
3
votes
9
replies
2.3k
views
Installing 'affy' package on MacOS M2 chip
nlme affy preprocessCore
updated 18 months ago by 65k • written 18 months ago by • 0
2
votes
3
replies
1.8k
views
i need AGI code as my probset
affy cdf probe
8.4 years ago • updated 8.2 years ago Angel ▴ 40
2
votes
3
replies
2.4k
views
RAW data in matrix: RMA normalization?
RMA affy raw expression
updated 8.3 years ago by 65k • written 8.3 years ago by ▴ 110
2
votes
1
reply
1.5k
views
Error in using library (affy)
affy R bioconductor microarray
updated 8.5 years ago by ★ 8.2k • written 8.5 years ago by • 0
2
votes
4
replies
2.3k
views
arrayQualityMetrics error: Error: Unknown parameters: cex.axis
affy microarray arrayqualitymetrics
updated 8.3 years ago by ★ 13k • written 8.3 years ago by ▴ 30
2
votes
2
replies
2.7k
views
Issue with 'Could not obtain CDF environment' after attempting to extract information out of an AffyBatch object
Affy cdf .cel
updated 6.1 years ago by 65k • written 6.1 years ago by • 0
2
votes
7
replies
1.5k
views
GEO MicroArray Download, Annotation, and Main Probe Filtering
microarray affy biomart
8.2 years ago anthonycolombo60 • 0
2
votes
4
replies
1.5k
views
Help with microarray analysis (forming cdf files)
microarray affy makecdfenv
updated 9.0 years ago by 65k • written 9.0 years ago by ▴ 10
2
votes
3
replies
2.4k
views
hgu133plus2hsentrezgcdf or hgu133ahsentrezgcdf packages not installing
readaffy frma affy package installation hgu133a
6.1 years ago Chris Mancuso • 0
2
votes
2
replies
907
views
Affy's exprs not working.. intensity works..
affy exprs intensity
updated 5.9 years ago by 65k • written 5.9 years ago by • 0
2
votes
2
replies
1.3k
views
problem with custom cdf
microarray affy hgu133plus2 annotation cdf
updated 9.3 years ago by 65k • written 9.4 years ago by • 0
2
votes
2
replies
2.5k
views
Subsetting ESet object based on featuredata
affy
updated 9.4 years ago by 65k • written 9.4 years ago by ▴ 10
2
votes
3
replies
1.4k
views
unusal expression level values after normalization in Affymetrix microarray experiment
microarray gcrma affy hgu133a normalization
updated 7.0 years ago by 50k • written 7.0 years ago by ▴ 50
2
votes
1
reply
1.1k
views
perform probe level RMA without summarization
u133a normalization rma affy
updated 7.3 years ago by 65k • written 7.3 years ago by ▴ 10
2
votes
6
replies
2.5k
views
Questions about analysis of GeneChip Rat Gene 2.0 ST Array
microarray affy oligo annotation
9.2 years ago khosoda • 0
2
votes
7
replies
1.4k
views
Not able to reproduce limma results from affy chip with or without CEL file from 2 GSE datasets
limma GEOquery affy
updated 7.1 years ago by 65k • written 7.1 years ago by • 0
2
votes
4
replies
2.6k
views
makePdInfoPackage for Primeview arrays
BiocViews Annotation Cancer Organism cdf probe affy biocViews BiocViews BiocViews Cancer
updated 10.8 years ago by ★ 3.9k • written 10.8 years ago by ▴ 140
2
votes
10
replies
6.1k
views
Probeset ID's to entrez for Clariom D Human Affy Array
microarray affy
updated 7.6 years ago by 65k • written 7.6 years ago by • 0
50 results • Page 1 of 1
Recent ...
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Answer: Memory errors using read.bismark? by Peter Hickey ▴ 690
Thanks for sharing an example file. This is a very large non-CpG methylation dataset, which are tricky to work with for a number of reason…
Comment: Reading huge bismark coverage files using bbseq::read.bismark by Peter Hickey ▴ 690
Superficially, your issue is similar to [https://github.com/hansenlab/bsseq/issues/136](https://github.com/hansenlab/bsseq/issues/136). You…
Answer: Reading huge bismark coverage files using bbseq::read.bismark by Peter Hickey ▴ 690
I'm one of the **bsseq** developers. Are you able to share one of your files with me (e.g., via Dropbox, Google Drive, OneDrive, etc.). Tha…
Comment: ComplexHeatmap: add pch to rowAnnotation when the input is a data frame with var by daniel.carbajo • 0
Yeah I think this is the way to go! How can I pass `col_list` here though? `Heatmap` does not accept a list of color vectors... How can I m…
Answer: The issue with SGSeq_analyzeFeatures() returns errors on BAM files by kamryncole1963 • 0
https://support.bioconductor.org/p/85837/[tunnel rush][1] Refer to this link, it may help. [1]: https://tunnelrush3.com
Votes
Answer: ComplexHeatmap: add pch to rowAnnotation when the input is a data frame with var
Comment: Not fully paired differential gene expression analysis
Answer: GSVA error
Comment: DESeq2 - Plot Nr. Genes vs Variance explained in PCA
Answer: How to retrieve detailed regression results from deseq2
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