Showing : agilent microarrays • reset
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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 5.5 years ago by 50k • written 5.5 years ago by ▴ 830
2
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3
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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 5.5 years ago by 50k • written 5.5 years ago by ▴ 830
6
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5
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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
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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4
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1.7k
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Simple differential expression analysis for 2 groups
differential gene expression agilent microarrays microarray DEA Limma
5.7 years ago christiangriffioen • 0
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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
3
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944
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Agilent description of headers
agilent microarrays
updated 5.9 years ago by ▴ 40 • written 5.9 years ago by • 0
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848
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Reg.: Ringo,open source R package
agilent microarrays chipseq
updated 5.9 years ago by 65k • written 5.9 years ago by • 0
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Processing agilent data by limma
limma agilent microarrays
updated 6.0 years ago by 50k • written 6.1 years ago by ▴ 260
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3
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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
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
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problems in reading a file in AgiMicroRna package
agimicrorna read.agimicrorna agilent microarrays
updated 6.5 years ago by ★ 1.0k • written 6.6 years ago by • 0
0
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Agilent microrna microaaray
agilent microarrays microrna analysis
6.7 years ago arisarkar88 ▴ 40
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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
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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 6.9 years ago by 65k • written 7.0 years ago by • 0
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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
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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
4
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6
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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
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886
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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
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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
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
6
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11
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2.1k
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microarray data analsis with limma?
limma genepix microarray agilent microarrays
7.9 years ago Mehmet Ilyas Cosacak • 0
3
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12
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2.7k
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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
23 results • Page 1 of 1
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Comment: Reproducibility issue with scran together with lapply and BiocParallel by ATpoint ★ 4.0k
Thanks Aaron for the response. RNGseed (for me) has no effect. I actually stumbled over this in one of my analysis where I have a constant …
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2) by winwater0928 • 0
Thank you for your comment! 1)"Your contrast is comparing LGR5 to Homeostasis." means (Lgr5)/(Homeostasis). Is it right? Then, I think if…
Answer: Reproducibility issue with scran together with lapply and BiocParallel by Aaron Lun ★ 28k
IIRC **BiocParallel** switches to a different RNG when inside its own functions like `bplapply` - specifically L'Ecuyer-CMRG, as opposed to…
Comment: DESeq2 output used for PCA plot on R studio by swbarnes2 ★ 1.3k
This looks terrible for RNASeq data, because it's not RNASeq data. It's a matrix of pretty random numbers, which you know because you poste…
Comment: DESeq2 output used for PCA plot on R studio by Aaliya • 0
I had taken this code from internet, but after reading about it and I did on my own, I would be making a post to ask for the suggestions if…
Votes
C: null model and DEXSeqDataSet object in DEXSEQ
A: Are published RNA seq data analyses often wrong in calculating p-values and FDR?
A: How to explain how DESeq2 works to someone with zero bioinformatics background?
Answer: Interpret plot from DiffBind
Answer: How to retrieve gene ontology GO class from gene list?
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