Showing : clustering • reset
0
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16
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1.9k
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Re: [S] Error in clustering procedure
Clustering Clustering
updated 19.6 years ago by ★ 1.0k • written 19.6 years ago by ★ 3.9k
0
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6
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1.5k
views
clustering question
Clustering Clustering
updated 18.2 years ago by ★ 6.0k • written 18.2 years ago by ▴ 890
0
votes
5
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1.5k
views
Best options for cross validation machine learning
Microarray Clustering Cancer Microarray Clustering Cancer
updated 14.3 years ago by ▴ 450 • written 14.3 years ago by ★ 1.9k
0
votes
4
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1.1k
views
win 64bit and general BioC computing power?
GO Clustering affy limma gcrma PROcess GO Clustering affy limma gcrma PROcess
updated 19.9 years ago by ▴ 360 • written 19.9 years ago by ▴ 940
0
votes
8
replies
3.1k
views
hclust and (Eisen+ de Hoon) cluster3 program
Clustering Clustering
updated 19.4 years ago by ▴ 290 • written 19.4 years ago by ▴ 140
0
votes
4
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1.5k
views
Positive correlation between dye-swap technical replicates
Normalization Clustering probe limma GLAD Normalization Clustering probe limma GLAD
14.3 years ago Michał Góralski ▴ 40
0
votes
6
replies
1.2k
views
where to start?
Classification Clustering Category Classification Clustering Category
updated 19.0 years ago by ★ 7.4k • written 19.0 years ago by ▴ 40
0
votes
3
replies
884
views
heatmap.2 and makeContrasts
Clustering Clustering
updated 13.1 years ago by ★ 13k • written 13.2 years ago by ▴ 40
0
votes
3
replies
1.4k
views
cross validation / bootstrap after classification
Clustering Clustering
updated 18.5 years ago by ▴ 30 • written 18.5 years ago by ▴ 310
0
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3
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3.3k
views
phyloseq/DESeq gives negative transformed values
Microbiome Normalization Clustering DESeq DESeq2 Microbiome Normalization Clustering DESeq
updated 10.0 years ago by ▴ 130 • written 10.0 years ago by 41k
0
votes
3
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1.4k
views
tweaks for the heatmap ()?
Clustering marray Clustering marray
updated 16.5 years ago by ▴ 510 • written 16.5 years ago by ▴ 270
0
votes
3
replies
1.2k
views
contributing to Bioconductor
GO Clustering geneplotter GO Clustering geneplotter
21.1 years ago Wilkinson, Mark ▴ 60
1
vote
3
replies
2.2k
views
microarray analysis in R without replicates
Microarray Clustering Microarray Clustering
updated 14.6 years ago by ▴ 630 • written 14.6 years ago by ▴ 60
0
votes
5
replies
3.1k
views
DESeq2
Normalization Classification Clustering DESeq cqn DESeq2 Normalization Classification cqn
updated 11.1 years ago by 41k • written 11.1 years ago by ★ 13k
3
votes
4
replies
2.0k
views
Large differences in sample clustering using cummeRbund (csDendro) and rlog-distance (DESeq2)
deseq2 cummerbund rlog fpkm clustering
8.3 years ago Jon Bråte ▴ 250
0
votes
3
replies
2.6k
views
Inherits(x,"data.frame") error in SamR
Microarray Normalization Preprocessing Bayesian Clustering TimeCourse Cancer affy vsn LPE
18.2 years ago McGee, Monnie ▴ 300
0
votes
3
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1.2k
views
Problems with heatmap on genes...
Clustering Clustering
updated 19.5 years ago by ▴ 270 • written 19.5 years ago by ▴ 540
0
votes
3
replies
992
views
hgu133_plus_2?
Clustering gcrma Clustering gcrma
updated 19.3 years ago by ▴ 150 • written 19.3 years ago by ▴ 10
0
votes
4
replies
1.3k
views
Gene clusters based on gene expression across samples
kmeans gene expression clustering
6.5 years ago Jane Merlevede ▴ 90
0
votes
3
replies
1.7k
views
GO enrichment significance
GO Clustering Cancer Lung GO Clustering Cancer Lung
11.8 years ago Grimes Mark ▴ 40
0
votes
4
replies
1.1k
views
Theoretical Question
Microarray GO Clustering Cancer limma Microarray GO Clustering Cancer limma
updated 19.9 years ago by ▴ 810 • written 19.9 years ago by 65k
0
votes
4
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1.4k
views
Clustering like Eisen
Clustering Clustering
updated 19.7 years ago by 21k • written 19.7 years ago by ▴ 70
0
votes
5
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2.5k
views
brief quesion on DESeq2
Clustering GenomicRanges DESeq2 Clustering GenomicRanges DESeq2
updated 11.0 years ago by ▴ 20 • written 11.1 years ago by 41k
0
votes
3
replies
2.2k
views
batch effects 450K
Clustering Cancer Breast minfi sva Clustering Cancer Breast minfi sva
updated 11.9 years ago by ▴ 110 • written 11.9 years ago by ★ 13k
0
votes
2
replies
999
views
Illumina based one color microarray data analysis
Microarray Clustering Microarray Clustering
updated 10.6 years ago by ★ 3.6k • written 10.6 years ago by ★ 13k
0
votes
2
replies
1.1k
views
Batch effects and linear models
Clustering Clustering
updated 19.2 years ago by ▴ 810 • written 19.2 years ago by ▴ 100
0
votes
2
replies
1.4k
views
DESeq variance stabilisation and clustering
Genetics Clustering PROcess DESeq Genetics Clustering PROcess DESeq
updated 13.1 years ago by ▴ 30 • written 13.1 years ago by ▴ 20
0
votes
13
replies
2.2k
views
Bioconductor Digest, Vol 87, Issue 10
Clustering hopach Clustering hopach
updated 13.9 years ago by ▴ 160 • written 14.0 years ago by ▴ 130
14
votes
4
replies
29k
views
heatmap.2() get matrix after hierarchical clustering
Clustering Clustering
updated 11.5 years ago by ★ 1.7k • written 11.5 years ago by ★ 13k
0
votes
3
replies
1.0k
views
Reg: Different clustering methods available for affy data
Clustering Clustering
updated 14.0 years ago by 21k • written 14.0 years ago by ▴ 170
0
votes
6
replies
1.6k
views
Fwd: how to plot corr between two tissues/dendrograms
Microarray GO Clustering Microarray GO Clustering
updated 13.5 years ago by ★ 1.1k • written 13.5 years ago by 21k
0
votes
2
replies
987
views
Retrieving a subset from normalized microarray data for differential test in R package, Limma
Clustering limma Clustering limma
updated 13.1 years ago by ▴ 80 • written 13.1 years ago by ▴ 10
0
votes
7
replies
2.5k
views
scholarly reference for "don't draw PCA/heatmap dendrograms on DEGs"
Clustering Clustering
updated 10.4 years ago by ★ 1.6k • written 10.4 years ago by ▴ 200
0
votes
4
replies
1.1k
views
Adding chips to an existing set of normalised data
Clustering probe Clustering probe
updated 20.9 years ago by ▴ 220 • written 20.9 years ago by ★ 1.1k
0
votes
3
replies
1.8k
views
Clustering in R
Microarray Normalization Clustering Microarray Normalization Clustering
updated 19.9 years ago by ★ 3.4k • written 19.9 years ago by ▴ 10
0
votes
4
replies
6.0k
views
Heatmap without using clustering result
Clustering Mfuzz Clustering Mfuzz
updated 15.2 years ago by ▴ 60 • written 15.2 years ago by ▴ 430
2
votes
4
replies
2.9k
views
Your thoughts on Limma Array Weights?
Clustering limma Clustering limma
updated 15.8 years ago by 50k • written 15.8 years ago by ▴ 970
0
votes
2
replies
999
views
Common microarray clustering method
Microarray Clustering Microarray Clustering
updated 19.4 years ago by ▴ 110 • written 19.4 years ago by ▴ 20
0
votes
4
replies
2.7k
views
How to get and save normalized data from limma
Clustering limma Clustering limma
15.6 years ago Wang, Jixin ▴ 130
0
votes
2
replies
2.6k
views
Batch effect in limma
Clustering Clustering
updated 14.6 years ago by 65k • written 14.6 years ago by ▴ 240
0
votes
2
replies
1.1k
views
clustering of genes
Transcription Clustering Cancer Transcription Clustering Cancer
updated 21.0 years ago by ★ 13k • written 21.0 years ago by 50k
0
votes
2
replies
1.2k
views
Hierarchical clustering and shrinking centroids...
Classification Clustering pamr Classification Clustering pamr
updated 19.9 years ago by ★ 1.0k • written 19.9 years ago by ▴ 180
0
votes
2
replies
6.7k
views
hierarchical clustering - spearman correlation
Clustering Clustering
updated 19.5 years ago by ★ 13k • written 19.5 years ago by ▴ 130
0
votes
4
replies
961
views
limma: get all sig genes from multiple contrasts
Clustering limma Clustering limma
updated 17.9 years ago by ▴ 270 • written 17.9 years ago by ▴ 60
0
votes
3
replies
1.6k
views
Correlation works, but dist() runs out of memory
Clustering Cancer Clustering Cancer
updated 17.1 years ago by 21k • written 17.1 years ago by ★ 1.9k
0
votes
3
replies
1.7k
views
Timeseries loop design analysis using Limma or Maanova?
Bayesian Clustering TimeCourse timecourse oligo Bayesian Clustering TimeCourse timecourse
18.2 years ago Pete ▴ 70
0
votes
2
replies
1.4k
views
splitting clusters and cluster significance
Clustering Clustering
20.6 years ago Subramanian Karthikeyan ▴ 60
0
votes
2
replies
2.2k
views
: Clustering with Diana
Clustering Clustering
updated 19.4 years ago by ▴ 140 • written 19.4 years ago by ▴ 500
0
votes
3
replies
1.4k
views
Clustering and gene modules
Genetics Clustering Cancer goCluster Genetics Clustering Cancer goCluster
updated 19.3 years ago by 21k • written 19.3 years ago by ▴ 40
0
votes
4
replies
1.1k
views
lumiHumanAll.db, GOstats
Clustering GOstats Clustering GOstats
updated 15.9 years ago by ★ 3.6k • written 15.9 years ago by ▴ 270
50 results • Page 1 of 1
Recent ...
Replies
Comment: DESeq2 output used for PCA plot on R studio by Aaliya • 0
How am i making the data? I am using the DESeq2 output data which I had generated
Answer: Use of negative binomial model for exponential decay rate estimation using DESeq by Michael Love 41k
Sounds reasonable. For ranking genes, you could choose those with low decay rate but removing thoses where it is indistinguishable from …
Answer: Citation for edgeR user guide by Gordon Smyth 50k
Thanks for thinking about how to cite edgeR. Citations are indeed the main way by which the edgeR authors get credit for their work. The Us…
Comment: DESeq2 output used for PCA plot on R studio by swbarnes2 ★ 1.3k
You are just making up data? What is the point of this exercise?
Comment: How to retrieve gene ontology GO class? by James W. MacDonald 65k
What do you mean by 'the information'? Do you have things in particular that you want?
Votes
Answer: Citation for edgeR user guide
Use of negative binomial model for exponential decay rate estimation using DESeq (or similar)
Answer: How to correct for age, sex, etc. from an RNA-seq data in DESeq2.
Answer: minfi::read.metharray.exp
Comment: Trying to use enrichGO
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