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Compare different cell lines with tissues using limma
limma MicroarrayData Microarray Agilent
updated 22 months ago by 50k • written 22 months ago by • 0
0
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1
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684
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Import and Analyze 4 GSE12050_GSM304448.gpr microarrays files
.gpr raw Agilent MicroarrayData import
updated 2.5 years ago by 50k • written 2.5 years ago by • 0
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7
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1.0k
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Problems with analysing Agilent G3 GEx Rat V2 chips
Agilent limma
2.8 years ago AB • 0
3
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1
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768
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Create a '.db' package for agilent
R agilent microarray
updated 3.6 years ago by 65k • written 3.6 years ago by ▴ 20
6
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4
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3.1k
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AnnotationData Packages for Agilent microarrays
microarray annotation limma .db Agilent
updated 4.6 years ago by 65k • written 4.6 years ago by ▴ 30
1
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12
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2.2k
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avereps with probes mapping to multiple genes (Agilent dual color microarray)
limma avereps probe mapping microarray Agilent
updated 5.3 years ago by 50k • written 5.3 years ago by ▴ 30
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covert from RGList to uRNAList
agilent agimicrorna
updated 5.4 years ago by 50k • written 5.4 years ago by ▴ 30
1
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2
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956
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Why does backgroundCorrect with method="none" produce different plots with plotMA()?
agilent single channel plotMA background correction
updated 5.9 years ago by 50k • written 5.9 years ago by ▴ 10
3
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4
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1.2k
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Agilent Single-Channel Data: Questions about model statement and model building.
limma agilent microarray covariates
updated 6.0 years ago by 50k • written 6.0 years ago by ▴ 10
1
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1
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1.1k
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Agilent Data Normalization Result
limma agilent arrayexpress
updated 6.1 years ago by 50k • written 6.1 years ago by • 0
2
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11
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2.0k
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Agilent One Channel Data: Will I be able to use limma with flagged data removed.
limma agilent
6.1 years ago CantExitVIM ▴ 10
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786
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Processing of agilent data
agilent
6.2 years ago Agaz Hussain Wani ▴ 260
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1.8k
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Help with diff. expression analysis of Agilent files
microarray agilent differential gene expression R
updated 6.9 years ago by ★ 1.0k • written 6.9 years ago by ▴ 30
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1.1k
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annotation of agillent array G3 Human Gene Expression v3 8x50
microarray annotation agilent
updated 7.3 years ago by 65k • written 7.3 years ago by ▴ 40
3
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4
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LIMMA and Agilent single color
Annotation probe limma agilent
13.4 years ago • updated 7.3 years ago Gordon Smyth 50k
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2
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1.3k
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Right use of model.matrix?
limma agilent microarray lmfit model.matrix
updated 7.5 years ago by 50k • written 7.5 years ago by ▴ 10
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9
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2.3k
views
Question about Agilent microarray data measurement
Agilent limma scan.upc microarray
7.5 years ago Maximilian ▴ 10
3
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3
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3.9k
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Negative values after normalizing an agilent microarray dataset with limma
limma agilent offset background correction microarray
updated 8.2 years ago by 65k • written 8.2 years ago by ▴ 80
3
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9
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2.4k
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Annotation problem while quering hgug4112a.db with function select and duplicates for agilent microarray dataset
limma annotation agilent hgug4112a microarray
8.2 years ago Konstantinos Yeles ▴ 80
5
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10
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1.6k
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Limma Design Matrix for two channel agilent arrays (direct experimental design)
Limma limma design matrix agilent twochannel
8.2 years ago pm2015 • 0
1
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2
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1.3k
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BioMart Attributes/Filters missing
microarray agilent biomart annotation
updated 8.4 years ago by 65k • written 8.4 years ago by • 0
2
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3
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1.3k
views
how to set design for 2-dye Agilent array experiment with common reference group?
limma 2-dye agilent common reference design
updated 8.4 years ago by 65k • written 8.4 years ago by ★ 3.9k
0
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2
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1.9k
views
Agilent Data Normalization Method
limma agilent
updated 8.5 years ago by 50k • written 8.5 years ago by • 0
2
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1
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3.9k
views
Find correct annotation for specific agilent platforms Whole Human Genome Microarray 4x44K
agilent whole Human Genome Microarray 4X44K annotationdbi bioconductor
8.5 years ago Konstantinos Yeles ▴ 80
3
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9
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2.0k
views
Single channel analysis of two-color agilent array using limma
agilent limma twochannel microarray
updated 8.6 years ago by 50k • written 8.6 years ago by • 0
2
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5
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2.0k
views
Problems with "read.agiMicroRna"
read.agiMicroRna agilent limma microarray mirna
updated 8.6 years ago by ▴ 30 • written 8.6 years ago by ▴ 10
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2
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1.3k
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microarray agilent data
microarray agilent limma
updated 8.8 years ago by ▴ 130 • written 8.8 years ago by • 0
1
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2
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2.0k
views
Normalize between Arrays (Agilent two color)
limma agilent
updated 8.8 years ago by 50k • written 8.8 years ago by • 0
0
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1
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1.1k
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replacement package Agi4x44PreProcess
microarray agilent
updated 8.8 years ago by ★ 1.0k • written 8.8 years ago by ▴ 320
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2.5k
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which Agilent annotation db?
agilent annotation
8.9 years ago Frederico Moraes Ferreira ▴ 100
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1.7k
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problem with update limma - green channel missing
limma bioconductor read.maimages agilent 8x60K
9.2 years ago wd ▴ 30
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2
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1.4k
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Annotation package for Agilent Human G4110A chip
Agilent annotation
updated 9.2 years ago by 50k • written 16.1 years ago by ★ 1.1k
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1
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1.6k
views
Annotation for Agilent chip DesignID 39494 (one color array)
agilent microarray annotation
updated 9.2 years ago by 50k • written 9.2 years ago by ▴ 150
1
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2
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2.1k
views
summarization for G4110B two colors agilent array: how to?
marray agilent twochannel normalization limma
updated 9.3 years ago by 50k • written 9.3 years ago by ▴ 240
2
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2
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2.1k
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Analysing two-channel Agilent microarray data
limma microarray agilent
updated 9.5 years ago by 50k • written 9.5 years ago by • 0
2
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4
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2.3k
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a question about input agilent single-channel data to R and analyze
Agilent microarray
updated 9.5 years ago by 50k • written 9.5 years ago by • 0
2
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4
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3.0k
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exporting limma log2 data
limma export log2 data agilent
updated 9.5 years ago by 65k • written 9.5 years ago by ▴ 110
37 results • Page 1 of 1
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Comment: DESeq2 output used for PCA plot on R studio by swbarnes2 ★ 1.3k
You didn't generate it with an experiment, you made it up: Your PCA doesn't look like a good RNASeq experiment, because it's not.
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2) by swbarnes2 ★ 1.3k
Your contrast is comparing LGR5 to Homeostasis. The bottom 2 are fine, it's the top one that is wrong. Are you sure this step isn't misla…
Comment: get BM error by James W. MacDonald 65k
I believe you need NCBI Gene IDs for KEGG, in which case you may need to map. The three genes you have shown here don't map, and of those t…
Comment: get BM error by Fara • 0
Thank you for your response. The primary reason for translating Ensembl IDs into Entrez Gene IDs is to perform KEGG (Kyoto Encyclopedia of…
Comment: Error for AnnotationForge makeOrgPackageFromNCBI function by James W. MacDonald 65k
That's weird. I don't have any problem at all generating the `OrgDb` on my box. How big is the gene2pubmed.gz file? I get this: ``` gzip -…
Votes
Answer: get BM error
Answer: Use of negative binomial model for exponential decay rate estimation using DESeq
Comment: Different Shrunk Log2FC according with reference
Reproducibility issue with scran together with lapply and BiocParallel
C: SGSeq: moving toward diffex from SGSeq analysis
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