Showing : Clustering • reset
1
vote
3
replies
2.5k
views
WGCNA clustering configuration
clustering wgcna microarray
updated 9.4 years ago by ★ 3.0k • written 9.4 years ago by ▴ 760
0
votes
0
replies
971
views
Analysis of Various chemical compounds on Cytotoxity Cell lines
clustering normalization
9.4 years ago ramars • 0
2
votes
3
replies
3.8k
views
scran: question on minimum cluster size for computeSumFactors()
scran single cell normalization clustering
9.4 years ago aatsmith • 0
0
votes
1
reply
1.1k
views
Plot with two separated groups of genes.
scatter-plot clustering
updated 9.5 years ago by ▴ 10 • written 9.5 years ago by • 0
1
vote
1
reply
1.1k
views
Clustering like samples with a lot of data
clustering
9.5 years ago gaiusjaugustus • 0
2
votes
8
replies
2.9k
views
Clustering RNASeq samples from different libraries using DESeq2
clustering DESeq2
9.5 years ago Jane Merlevede ▴ 90
2
votes
16
replies
4.6k
views
Approaches to group the RNA-Seq samples with large heterogeneity
clustering pca deseq2 edger logfoldchange
updated 9.5 years ago by 43k • written 9.5 years ago by ▴ 10
1
vote
1
reply
5.9k
views
Mfuzz: fill.NA - Warning messages: argument is not numeric or logical: returning NA
mfuzz clustering bioinformatics proteomics timecourse
updated 9.6 years ago by 1.6k • written 9.6 years ago by • 0
0
votes
1
reply
2.1k
views
Microarray time-course clustering, using "hclust" in masigPro
clustering hclust maSigPro
updated 9.6 years ago by • 0 • written 10.1 years ago by ▴ 50
0
votes
2
replies
1.7k
views
clustering analysis of illumina microarray gene expression data
clustering illumina microarray
9.6 years ago kritikamish99 ▴ 10
1
vote
2
replies
5.4k
views
WGCNA distance measures, clustering with TOM based on adjacency matrix type = "distance" versus correlation
wgcna microarray clustering
updated 9.6 years ago by ★ 3.0k • written 9.6 years ago by • 0
3
votes
4
replies
2.5k
views
Large differences in sample clustering using cummeRbund (csDendro) and rlog-distance (DESeq2)
deseq2 cummerbund rlog fpkm clustering
9.7 years ago Jon Bråte ▴ 270
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 9.7 years ago by ▴ 610 • written 9.7 years ago by ▴ 80
0
votes
0
replies
2.3k
views
ConsensusClusterPlus - predict clusters for new cases?
consensusclusterplus clustering
9.9 years ago philipp24 ▴ 30
0
votes
1
reply
1.4k
views
Distance measure used by snpgdsPCA in SNPRelate
snp clustering
9.9 years ago mattcott • 0
0
votes
1
reply
901
views
Problems with clustering a micro array data using R
microarray R clustering
updated 10.0 years ago by ▴ 130 • written 10.0 years ago by • 0
2
votes
3
replies
4.9k
views
Deseq2. Cluster of an specific list
deseq2 heatmap clustering file list
updated 10.0 years ago by 43k • written 10.0 years ago by • 0
6
votes
2
replies
4.0k
views
Is ComBat introducing a signal where there is none?
Microarray Clustering Cancer limma Microarray Clustering Cancer limma
11.8 years ago • updated 10.1 years ago Vegard Nygaard ▴ 120
6
votes
5
replies
5.1k
views
voom + removeBatchEffect + gene clustering
voom limma clustering removebatcheffect() batch effect
updated 10.2 years ago by 53k • written 10.2 years ago by ▴ 10
0
votes
2
replies
1.7k
views
Possible construction of heatmap for clustering only genes for different treatments and not samples
heatmap.2 clustering common DEG genes bioconductor
updated 10.2 years ago by 68k • written 10.2 years ago by ▴ 840
0
votes
0
replies
2.1k
views
Clustering sequence on similarity using percentage identity matrix
alignment clustering
10.3 years ago Bade ▴ 310
2
votes
5
replies
6.1k
views
Can I use the WGCNA dendrogram to display a heatmap of gene expression?
wgcna heatmap desq2 clustering
updated 10.4 years ago by ★ 1.6k • written 10.4 years ago by ▴ 270
0
votes
1
reply
2.1k
views
Using PCA for unsupervised clustering of RNA-Seq with DESeq2
rnaseq pca deseq2 clustering
updated 10.4 years ago by 43k • written 10.4 years ago by ▴ 60
1
vote
4
replies
1.6k
views
Specifically expressed genes
DESeq2 specific expression rnaseq clustering differential expression
updated 10.4 years ago by 43k • written 10.4 years ago by • 0
0
votes
1
reply
1.7k
views
Deseq2 and gene clustering
deseq2 clustering
updated 10.5 years ago by 43k • written 10.5 years ago by ▴ 40
1
vote
2
replies
1.9k
views
Binning expression data along with capturing gene identifiers
rnaseqdata clustering
updated 10.7 years ago by ★ 2.1k • written 10.7 years ago by ▴ 150
0
votes
3
replies
3.9k
views
Generating heat map of pre-organised data in matrix without clustering using ggplot2 or heatmap.2
Clustering Clustering
updated 11.1 years ago by 68k • written 11.1 years ago by ▴ 70
0
votes
3
replies
1.6k
views
Is a subset of my arrays from degraded RNA?
Microarray GO Clustering affy affyPLM simpleaffy Microarray GO Clustering affy affyPLM
11.2 years ago Peter Davidsen ▴ 210
0
votes
2
replies
2.5k
views
DESEq | Batch effect | VST data and linear model adjustment
Clustering Lung DESeq DESeq2 Clustering Lung DESeq DESeq2
updated 11.2 years ago by ★ 3.8k • written 11.2 years ago by ▴ 20
0
votes
0
replies
1.8k
views
mfuzz problems
Clustering Mfuzz Clustering Mfuzz
11.4 years ago Assa Yeroslaviz ★ 1.5k
0
votes
0
replies
1.3k
views
Course "CSAMA 2014" Computational Statistics for Genome Biology
Annotation Classification Clustering Annotation Classification Clustering
11.4 years ago Wolfgang Huber ★ 13k
1
vote
3
replies
2.3k
views
DESeq2 Regularised Log for Clustering of Genes
Clustering DESeq2 Clustering DESeq2
updated 11.4 years ago by ★ 3.8k • written 11.4 years ago by 43k
0
votes
3
replies
3.7k
views
phyloseq/DESeq gives negative transformed values
Microbiome Normalization Clustering DESeq DESeq2 Microbiome Normalization Clustering DESeq
updated 11.4 years ago by ▴ 130 • written 11.4 years ago by 43k
0
votes
0
replies
3.7k
views
ComBat_ Error in solve.default(t(design) %*% design): Lapack routine dgesv: system is exactly singular: U[4, 4] = 0
Normalization Clustering affy Normalization Clustering affy
11.4 years ago Guan ▴ 20
2
votes
1
reply
3.2k
views
voom transformed data
Clustering limma Clustering limma
updated 11.5 years ago by 53k • written 11.5 years ago by ★ 13k
0
votes
2
replies
3.0k
views
Questions about multi-factor contrast setting in DESeq2
GO Visualization Clustering limma edgeR DESeq2 GO Visualization Clustering limma edgeR
updated 11.5 years ago by ▴ 380 • written 11.5 years ago by 43k
0
votes
0
replies
1.3k
views
CSAMA 2014: Computational Statistics for Genome Biology - June 22-27, 2014
Sequencing Annotation Classification Clustering Sequencing Annotation Classification
11.6 years ago Wolfgang Huber ★ 13k
0
votes
7
replies
7.0k
views
DESeq2 - regularised log transformation blind or not?
Clustering DESeq2 Clustering DESeq2
updated 11.6 years ago by ★ 13k • written 11.6 years ago by ▴ 30
0
votes
0
replies
1.3k
views
Problems with using Pearson correlation in hcluster / hclust2treeview
Clustering Clustering
11.6 years ago Guest User ★ 13k
0
votes
2
replies
1.4k
views
Can we use Intraclass correlation (ICC) to optimize clustering parameters?
GO Clustering rat2302 affy GO Clustering rat2302 affy
updated 11.6 years ago by ★ 4.2k • written 11.6 years ago by ★ 13k
0
votes
2
replies
3.0k
views
DESeq2 error
Visualization Clustering DESeq2 Visualization Clustering DESeq2
11.6 years ago Michael Love 43k
0
votes
2
replies
1.4k
views
DAVIDQuery
Clustering affy Clustering affy
updated 11.6 years ago by ★ 8.2k • written 11.6 years ago by ★ 1.5k
0
votes
7
replies
3.1k
views
scholarly reference for "don't draw PCA/heatmap dendrograms on DEGs"
Clustering Clustering
updated 11.8 years ago by ★ 1.6k • written 11.8 years ago by ▴ 200
0
votes
3
replies
1.5k
views
Dealing with probes with high fold change but PA call 0
Clustering probe ASSIGN Clustering probe ASSIGN
updated 11.8 years ago by ★ 13k • written 11.8 years ago by ▴ 230
0
votes
4
replies
3.5k
views
450k annotation packages compatible version and analysis with blockFinder (minfi)
Annotation Clustering convert minfi Annotation Clustering convert minfi
updated 11.9 years ago by ★ 6.5k • written 11.9 years ago by ▴ 50
0
votes
0
replies
1.6k
views
help with cleanUpdTSeq for PAS analysis
Normalization Clustering convert cleanUpdTSeq Normalization Clustering convert cleanUpdTSeq
12.0 years ago Julie Zhu ★ 4.3k
0
votes
0
replies
920
views
R/S-PLUS Course schedule in US - XLSolutions Corp
Clustering Clustering
12.0 years ago sue@xlsolutions-corp.com ▴ 570
0
votes
3
replies
4.1k
views
How to deal with Affymetrix probe that map to multiple genes
GO Clustering probe convert GO Clustering probe convert
12.0 years ago Gundala Viswanath ▴ 230
0
votes
2
replies
1.3k
views
Illumina based one color microarray data analysis
Microarray Clustering Microarray Clustering
updated 12.1 years ago by ★ 3.6k • written 12.1 years ago by ★ 13k
0
votes
0
replies
2.5k
views
makeTranscriptDbFromGFF fails on NCBI Bacteria
Alignment Annotation Normalization GO Preprocessing Clustering Cancer Organism probe GLAD
12.1 years ago Sarah Pohl ▴ 30
374 results • Page 2 of 8
Recent ...
Replies
Comment: Guidance on limma for pseudobulk scRNA-seq with multi-factor design by Gordon Smyth 53k
I'm not sure that I understand. You have a dataset that, even after pseudo-bulking, still has 6000 samples? That is surprising. Retaining …
Comment: Guidance on limma for pseudobulk scRNA-seq with multi-factor design by abaed • 0
Hello again @gordonsmyth, I've now applied the analysis using a more detailed annotation of cell types/clusters, which includes about 100 …
Answer: Sharing a collection of datasets in ExperimentHub by shepherl 4.2k
107 packages would be a lot! It is certainly possible (and recommended) to implement one package that utilizes ExperimentHub for controlli…
Comment: GO.db and others package Download failure by James W. MacDonald 68k
Also, you never need to use anything but `BiocManager::install` to install any package, which has the beneficial side effect of ensuring th…
Comment: GO.db and others package Download failure by James W. MacDonald 68k
Yes. Your packages have odd Y version numbers (where the version is X.Y.Z). That means they are devel packages (release versions have even …
Votes
Comment: readDNAStringSet with non DNA characters
Comment: Guidance on limma for pseudobulk scRNA-seq with multi-factor design
Answer: Guidance on limma for pseudobulk scRNA-seq with multi-factor design
Answer: Guidance on limma for pseudobulk scRNA-seq with multi-factor design
Comment: Guidance on limma for pseudobulk scRNA-seq with multi-factor design
Awards • All
Popular Question to Stephen Piccolo ▴ 600
Popular Question to JKim • 0
Popular Question to Gordon Smyth 53k
Popular Question to Guangchuang Yu ★ 1.2k
Popular Question to Paulito • 0
Locations • All
WEHI, Melbourne, Australia, 43 minutes ago
WEHI, Melbourne, Australia, 2 hours ago
The city by the bay, 2 hours ago
Spain, 4 hours ago
Barcelona, Spain, 7 hours ago
Traffic: 1631 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6