Showing : clustering • reset
0
votes
16
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3.0k
views
Re: [S] Error in clustering procedure
Clustering Clustering
updated 21.4 years ago by ★ 1.0k • written 21.5 years ago by ★ 3.9k
2
votes
16
replies
4.9k
views
Approaches to group the RNA-Seq samples with large heterogeneity
clustering pca deseq2 edger logfoldchange
updated 9.9 years ago by 43k • written 9.9 years ago by ▴ 10
0
votes
13
replies
3.3k
views
Bioconductor Digest, Vol 87, Issue 10
Clustering hopach Clustering hopach
updated 15.8 years ago by ▴ 160 • written 15.8 years ago by ▴ 130
9
votes
10
replies
15k
views
Is the following a correct usage of Limma's removeBatchEffect() for clustered heat map generation?
limma removeBatchEffect heatmap clustering
updated 10.1 years ago by ▴ 610 • written 10.1 years ago by ▴ 80
0
votes
8
replies
3.9k
views
hclust and (Eisen+ de Hoon) cluster3 program
Clustering Clustering
updated 21.2 years ago by ▴ 290 • written 21.2 years ago by ▴ 140
11
votes
8
replies
13k
views
Limma and batch effect
limma differential gene expression clustering removebatcheffect
updated 8.4 years ago by 53k • written 8.4 years ago by ▴ 80
2
votes
8
replies
3.1k
views
Clustering RNASeq samples from different libraries using DESeq2
clustering DESeq2
9.9 years ago Jane Merlevede ▴ 90
0
votes
7
replies
3.3k
views
scholarly reference for "don't draw PCA/heatmap dendrograms on DEGs"
Clustering Clustering
updated 12.2 years ago by ★ 1.6k • written 12.2 years ago by ▴ 200
0
votes
7
replies
7.3k
views
DESeq2 - regularised log transformation blind or not?
Clustering DESeq2 Clustering DESeq2
updated 12.0 years ago by ★ 13k • written 12.0 years ago by ▴ 30
2
votes
6
replies
2.7k
views
Change the number of clusters with scater
scater scran scrnaseq clustering
updated 7.2 years ago by ★ 29k • written 7.2 years ago by ▴ 20
0
votes
6
replies
2.0k
views
Labels in exprs to plot
Clustering affy PROcess Clustering affy PROcess
updated 21.5 years ago by 68k • written 21.5 years ago by ▴ 70
1
vote
6
replies
2.5k
views
edgeR removing batch effect before using expression data for clustering
edger r batcheffect clustering removeBatchEffect
updated 6.8 years ago by 68k • written 6.8 years ago by ▴ 120
0
votes
6
replies
2.1k
views
clustering question
Clustering Clustering
updated 20.0 years ago by ★ 6.0k • written 20.0 years ago by ▴ 890
0
votes
6
replies
1.6k
views
where to start?
Classification Clustering Category Classification Clustering Category
updated 20.8 years ago by ★ 7.4k • written 20.8 years ago by ▴ 40
2
votes
6
replies
4.0k
views
Clustering and bootstrapping of RNASeq samples
clustering pvclust vsd edgeR rnaseq
written 9.7 years ago by ▴ 90
7
votes
6
replies
7.7k
views
scaling data for clustering heat map
edger heatmap clustering differential gene expression rnaseq
updated 7.7 years ago by 53k • written 7.7 years ago by ▴ 60
0
votes
6
replies
2.2k
views
Fwd: how to plot corr between two tissues/dendrograms
Microarray GO Clustering Microarray GO Clustering
updated 15.3 years ago by ★ 1.1k • written 15.3 years ago by 21k
0
votes
5
replies
3.3k
views
brief quesion on DESeq2
Clustering GenomicRanges DESeq2 Clustering GenomicRanges DESeq2
updated 12.9 years ago by ▴ 20 • written 12.9 years ago by 43k
0
votes
5
replies
4.1k
views
Choosing genes for clustering
limma clustering differential gene expression hierarchical clustering feature selection
8.4 years ago lirongrossmann ▴ 80
0
votes
5
replies
4.0k
views
DESeq2
Normalization Classification Clustering DESeq cqn DESeq2 Normalization Classification cqn
updated 12.9 years ago by 43k • written 12.9 years ago by ★ 13k
6
votes
5
replies
5.3k
views
voom + removeBatchEffect + gene clustering
voom limma clustering removebatcheffect() batch effect
updated 10.6 years ago by 53k • written 10.6 years ago by ▴ 10
0
votes
5
replies
3.5k
views
Questions on using clusterProfiler
clustering clusterprofiler
9.4 years ago zhangducsu • 0
0
votes
5
replies
2.6k
views
DeSeq Strategies for run to run Replication
DESeq2 Normalization Clustering replicate
updated 8 months ago by 43k • written 3.5 years ago by • 0
0
votes
5
replies
2.1k
views
Best options for cross validation machine learning
Microarray Clustering Cancer Microarray Clustering Cancer
updated 16.1 years ago by ▴ 450 • written 16.1 years ago by ★ 1.9k
2
votes
5
replies
6.3k
views
Can I use the WGCNA dendrogram to display a heatmap of gene expression?
wgcna heatmap desq2 clustering
updated 10.8 years ago by ★ 1.6k • written 10.8 years ago by ▴ 270
0
votes
5
replies
2.1k
views
Illumina Probe_ID used in the LIMMA package for neqc function
Microarray Annotation Normalization Clustering probe limma Microarray Annotation probe
updated 12.6 years ago by ▴ 40 • written 12.6 years ago by ★ 3.6k
2
votes
4
replies
3.6k
views
Silhouette Plots for Clustering Quality (Multiple Algorithm)
scRNA-Seq RNA-Seq Clustering Silhouette Plot
updated 7.0 years ago by ★ 29k • written 7.0 years ago by ▴ 60
0
votes
4
replies
7.0k
views
Heatmap without using clustering result
Clustering Mfuzz Clustering Mfuzz
updated 17.0 years ago by ▴ 60 • written 17.0 years ago by ▴ 430
0
votes
4
replies
6.2k
views
DESeq Variance Stabilizing Transformation
Clustering DESeq DESeq2 Clustering DESeq DESeq2
updated 12.8 years ago by 43k • written 12.8 years ago by ▴ 50
0
votes
4
replies
3.3k
views
How to get and save normalized data from limma
Clustering limma Clustering limma
17.4 years ago Wang, Jixin ▴ 130
14
votes
4
replies
30k
views
heatmap.2() get matrix after hierarchical clustering
Clustering Clustering
updated 13.3 years ago by ★ 1.7k • written 13.3 years ago by ★ 13k
0
votes
4
replies
2.2k
views
Why SPADE package has been removed from bioconductor?
spade release remove clustering
updated 7.7 years ago by 68k • written 7.7 years ago by • 0
0
votes
4
replies
9.5k
views
Agilent 2-color Microarray data analysis tutorial
Microarray Visualization Clustering Microarray Visualization Clustering
updated 16.1 years ago by 25k • written 16.1 years ago by ▴ 140
0
votes
4
replies
2.0k
views
Gene clusters based on gene expression across samples
kmeans gene expression clustering
8.3 years ago Jane Merlevede ▴ 90
0
votes
4
replies
2.3k
views
coseq plotting error: no method for coercing this S4 class to a vector
coseq RNAseq clustering
updated 6.1 years ago by ▴ 80 • written 6.1 years ago by ▴ 40
0
votes
4
replies
1.6k
views
lumiHumanAll.db, GOstats
Clustering GOstats Clustering GOstats
updated 17.7 years ago by ★ 3.6k • written 17.7 years ago by ▴ 270
0
votes
4
replies
1.6k
views
Adding chips to an existing set of normalised data
Clustering probe Clustering probe
updated 22.7 years ago by ▴ 220 • written 22.7 years ago by ★ 1.1k
0
votes
4
replies
1.6k
views
Theoretical Question
Microarray GO Clustering Cancer limma Microarray GO Clustering Cancer limma
updated 21.7 years ago by ▴ 810 • written 21.7 years ago by 68k
2
votes
4
replies
3.8k
views
Your thoughts on Limma Array Weights?
Clustering limma Clustering limma
updated 17.6 years ago by 53k • written 17.7 years ago by ▴ 970
3
votes
4
replies
2.6k
views
Large differences in sample clustering using cummeRbund (csDendro) and rlog-distance (DESeq2)
deseq2 cummerbund rlog fpkm clustering
10.1 years ago Jon Bråte ▴ 270
1
vote
4
replies
2.2k
views
OrgDb for Tetrahymena thermophila
annotation clustering
updated 8.7 years ago by ★ 4.1k • written 8.7 years ago by • 0
0
votes
4
replies
1.7k
views
R/Bioc workshops at UC Riverside
Clustering Clustering
updated 15.4 years ago by ▴ 460 • written 15.4 years ago by ★ 1.7k
0
votes
4
replies
1.9k
views
Positive correlation between dye-swap technical replicates
Normalization Clustering probe limma GLAD Normalization Clustering probe limma GLAD
16.1 years ago Michał Góralski ▴ 40
0
votes
4
replies
3.7k
views
450k annotation packages compatible version and analysis with blockFinder (minfi)
Annotation Clustering convert minfi Annotation Clustering convert minfi
updated 12.3 years ago by ★ 6.5k • written 12.3 years ago by ▴ 50
1
vote
4
replies
1.7k
views
Specifically expressed genes
DESeq2 specific expression rnaseq clustering differential expression
updated 10.8 years ago by 43k • written 10.8 years ago by • 0
0
votes
4
replies
1.1k
views
Is a change in kit significant?
Clustering Cancer limma Clustering Cancer limma
updated 18.8 years ago by ★ 1.3k • written 18.8 years ago by ★ 1.9k
0
votes
4
replies
1.8k
views
Clustering like Eisen
Clustering Clustering
updated 21.5 years ago by 21k • written 21.5 years ago by ▴ 70
0
votes
4
replies
2.1k
views
Adding a text label to the classvec colour bar in heatplot
Clustering Cancer graph Clustering Cancer graph
updated 17.6 years ago by ▴ 460 • written 17.6 years ago by ▴ 510
0
votes
4
replies
1.5k
views
win 64bit and general BioC computing power?
GO Clustering affy limma gcrma PROcess GO Clustering affy limma gcrma PROcess
updated 21.7 years ago by ▴ 360 • written 21.7 years ago by ▴ 940
0
votes
4
replies
1.4k
views
limma: get all sig genes from multiple contrasts
Clustering limma Clustering limma
updated 19.7 years ago by ▴ 270 • written 19.7 years ago by ▴ 60
374 results • Page 1 of 8
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Answer: Unable to create venndiagram using VennDiagram 1.5.1 package by kesha • 0
<a href=https://vavadacasinox.com/>vavadacasinox.com</a>
Comment: How to convert .raw data for use in xcms by a2a2asawhaa • 0
try converting your files to the older mzXML format, which remains highly stable for XCMS. While waiting for large datasets to process, you…
Comment: Which preprocessing steps are needed before running limpa? by miro165sabo • 0
Hi @gordonsmyth, thank you a lot for very fast and valuable response. I edited the question to provide more details.
Answer: Should I use beta1 from limpa::dpc() or limpa::dpcCN(), if they differ? by Gordon Smyth 53k
I tend to use dpcCN(), because it more robust than dpc() to experiments with lots of samples and big differences between samples. You coul…
Answer: Which preprocessing steps are needed before running limpa? by Gordon Smyth 53k
Please see the example limpa analyses given at <http://github.com/smythlab/limpa>, especially the kidney cancer case study. limpa does not…
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Answer: Which preprocessing steps are needed before running limpa?
Answer: Should I use beta1 from limpa::dpc() or limpa::dpcCN(), if they differ?
Answer: Which preprocessing steps are needed before running limpa?
Answer: Which preprocessing steps are needed before running limpa?
Answer: Should I use beta1 from limpa::dpc() or limpa::dpcCN(), if they differ?
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