Showing : agilent microarrays • reset
3
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Questions about complex design in limma regarding an agilent microarray dataset with multiple time points and different biological replicates
limma design matrix multiple time points agilent microarrays
updated 8.2 years ago by ★ 28k • written 8.2 years ago by ▴ 80
6
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11
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2.2k
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microarray data analsis with limma?
limma genepix microarray agilent microarrays
8.0 years ago Mehmet Ilyas Cosacak • 0
4
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6
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2.0k
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Gene set Testing with Limma for Agilent IDs probes?
limma agilent microarrays gene set testing annotation
7.3 years ago Bouzid.a ▴ 20
6
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5
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3.2k
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How to analyze correctly agilent two-colour microarray data from the ArrayExpress repository with the limma R package
agilent microarrays limma arrayexpress NChannelSet
updated 5.6 years ago by 50k • written 5.6 years ago by ▴ 830
3
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5
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1.3k
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processing agilent data by limma
limma agilent microarrays
updated 6.2 years ago by 50k • written 6.2 years ago by ▴ 260
0
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4
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1.4k
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Agilent microrna microaaray
agilent microarrays microrna analysis
6.7 years ago arisarkar88 ▴ 40
2
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4
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1.6k
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Problem with Agilent microarray data analysis using limma package
limma agilent microarrays lmfit
updated 7.8 years ago by 50k • written 7.8 years ago by • 0
2
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4
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2.5k
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Processing agilent data by limma
limma agilent microarrays
updated 6.1 years ago by 50k • written 6.1 years ago by ▴ 260
0
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4
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1.8k
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Simple differential expression analysis for 2 groups
differential gene expression agilent microarrays microarray DEA Limma
5.8 years ago christiangriffioen • 0
0
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3
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2.1k
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Analyzing Agilent custom array in R
agilent microarrays analyze
updated 6.9 years ago by 65k • written 6.9 years ago by ▴ 40
2
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3
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1.4k
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Perform limma based gene-set testing for a two-group comparison in a microarray dataset regarding specific biological processes
limma agilent microarrays mroast fry gene tests gene set testing
updated 5.6 years ago by 50k • written 5.6 years ago by ▴ 830
0
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3
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1.2k
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Filtering genes based on Agilent flags
limma agilent microarrays
updated 6.1 years ago by 50k • written 16.9 years ago by ▴ 50
0
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2
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1.7k
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read.maimages(targets, source="genepix") Error in `[.data.frame`(obj, , columns[[a]]) : undefined columns selected
bioconductor limma agilent microarrays
updated 7.0 years ago by 65k • written 7.0 years ago by • 0
0
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2
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1.3k
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problems in reading a file in AgiMicroRna package
agimicrorna read.agimicrorna agilent microarrays
updated 6.6 years ago by ★ 1.0k • written 6.6 years ago by • 0
3
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2
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952
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Agilent description of headers
agilent microarrays
updated 5.9 years ago by ▴ 40 • written 5.9 years ago by • 0
1
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2
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1.7k
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Targets.txt file missing in agilent GEO data. How do I preprocess raw Agilent file of GEO data or how to makethe expression matrix step by step from …
limma microarray agilent microarrays GEO
updated 5.9 years ago by 65k • written 5.9 years ago by • 0
1
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2
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1.3k
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Explanation of mroast results for specific biological processes and error with barcodeplot function with a microarray dataset
limma mroast agilent microarrays GO.BP barcodeplot
updated 5.6 years ago by 50k • written 5.6 years ago by ▴ 830
5
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2
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1.4k
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Reading and normalizing two-color Agilent microarrays
limma agilent microarrays
updated 5.7 years ago by ★ 3.0k • written 5.7 years ago by ▴ 10
0
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1
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1.3k
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background correction of Single colour Agilent Microarrays
agilent microarrays background correction
updated 7.3 years ago by 50k • written 7.3 years ago by • 0
0
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1
reply
854
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Reg.: Ringo,open source R package
agilent microarrays chipseq
updated 6.0 years ago by 65k • written 6.0 years ago by • 0
0
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1
reply
2.1k
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R package for analysis Agilent microarray?
agilent microarrays
updated 7.1 years ago by 65k • written 7.1 years ago by • 0
0
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1
reply
889
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Limma code for Single colour microarray analysis with no replicates
limma microarray agilent microarrays single channel
updated 7.4 years ago by 50k • written 7.4 years ago by • 0
2
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0
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1.1k
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Quality Assessment of one color Agilent arrays?
limma one colour agilent microarrays qualitycontrol arrayqualitymetrics
7.5 years ago Bouzid.a ▴ 20
23 results • Page 1 of 1
Recent ...
Replies
Answer: Once again a "Model matrix not full rank" by swbarnes2 ★ 1.3k
Replicate numbers, like the 1 in control_1 are fine in sample names, but never add them to anything else in colData. From the computer's p…
Answer: limma Intercept vs No-intercept models completely changing DMR results? by Gordon Smyth 50k
I'll add a little bit of general advice to James' answer. You seem to have the misunderstanding that you can change the design matrix but …
Answer: package goseq seems to be not available on the latest version of R by Gordon Smyth 50k
It is true that goseq isn't available for Bioc 3.19. That is because goseq depends on txbmaker, which is itself not yet available for Bioc…
Answer: limma Intercept vs No-intercept models completely changing DMR results? by James W. MacDonald 65k
This part: ``` design_intercept <- model.matrix(~Alt+Sex+Age+PC1, data=targets_Sherpa) colnames(design_intercept) <- c("AltSHP_LA","Al…
Comment: CombineArrays for EPIC and EPIC V2 by Kim • 0
Thank you Tim, this is a great help in getting me started!
Votes
Answer: Why does GSEA on edgeR results for randomized samples give highly significant p-
Answer: limma Intercept vs No-intercept models completely changing DMR results?
Answer: CombineArrays for EPIC and EPIC V2
Answer: Too many significant genes when integrating gtex and tcga
Comment: Too many significant genes when integrating gtex and tcga
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