Showing : Clustering • reset
2
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3
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508
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"could not find function "readTSGE" in package ctsGE" Error occurs when trying to follow ctsGE package instructions.
GeneExpression Clustering ctsGE
3 months ago jbgnielson • 0
0
votes
3
replies
617
views
Clustering coefficient of synteny network
Network syntenet Clustering coefficient
11 months ago Alexandros • 0
0
votes
2
replies
812
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Scaling and normalization by deconvolution of SMART-Seq 2 data
scran Clustering SingleCell Normalization
14 months ago Assa Yeroslaviz ★ 1.5k
0
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0
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461
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maSigPro visualizing individually each plot from each cluster
plot maSigPro Clustering
21 months ago oseias.rf.junior • 0
0
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1
reply
869
views
WGCNA - Network construction and module detection
gene Clustering wgcna flashclust
updated 21 months ago by ▴ 50 • written 21 months ago by ▴ 20
0
votes
1
reply
663
views
DeSeq Strategies for run to run Replication
DESeq2 Normalization Clustering replicate
updated 22 months ago by 42k • written 22 months ago by • 0
4
votes
3
replies
1.6k
views
SingleCellExperiment: Edit cluster IDs in colLabels
scran Clustering SingleCellExperiment annotate cluster
updated 22 months ago by 66k • written 22 months ago by ▴ 10
2
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2
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1.3k
views
How to judge DEG analysis of these samples could be done by using limma::voom
limma Clustering voom RNA-Seq
23 months ago Yang Shi ▴ 10
0
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0
replies
801
views
The gene clusters from the WGCNA dendrogram output are not in order
Clustering WGCNA
2.1 years ago chiwut.wong • 0
0
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0
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803
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Only 1 gene/ feature is present in module after WGCNA analysis
RNASeq Clustering cluster WGCNA
2.2 years ago chiwut.wong • 0
0
votes
1
reply
627
views
Error running hierClust
hierClust R SNPs clustering
updated 2.2 years ago by 66k • written 2.2 years ago by • 0
0
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0
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901
views
ConsensusClusterPlus: annotate a class to the heatmap
Clustering ConsensusClusterPlus
2.8 years ago Gian ▴ 30
3
votes
2
replies
2.2k
views
Clustering differentially expressed genes in response to multiple treatments (using edgeR)
edger complexheatmap R clustering
updated 4.1 years ago by 51k • written 4.1 years ago by • 0
0
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4
replies
1.4k
views
coseq plotting error: no method for coercing this S4 class to a vector
coseq RNAseq clustering
updated 4.4 years ago by ▴ 80 • written 4.4 years ago by ▴ 30
0
votes
1
reply
2.0k
views
Evaluating HCPC clusters from FactoMineR using cluster.stats from fpc library
clustering r fpc FactoMineR
4.9 years ago anahochmanova • 0
0
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3
replies
967
views
How to find number of patients (percentage of given population) having high expression of gene A in given microarray data ?
microarray r clustering high expressed genes
updated 5.0 years ago by 66k • written 5.0 years ago by • 0
1
vote
6
replies
1.7k
views
edgeR removing batch effect before using expression data for clustering
edger r batcheffect clustering removeBatchEffect
updated 5.1 years ago by 66k • written 5.1 years ago by ▴ 110
0
votes
1
reply
1.2k
views
Consensus Cluster Plus pre-computed distance matrix
consensusclusterplus distance clustering
updated 5.2 years ago by ▴ 420 • written 5.2 years ago by • 0
1
vote
2
replies
1.5k
views
Dunn Index for Clusters from scRNA-Seq
scRNA-Seq clustering scater scran dunn index
updated 5.3 years ago by ★ 28k • written 5.3 years ago by ▴ 60
2
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4
replies
2.4k
views
Silhouette Plots for Clustering Quality (Multiple Algorithm)
scRNA-Seq RNA-Seq Clustering Silhouette Plot
updated 5.4 years ago by ★ 28k • written 5.4 years ago by ▴ 60
2
votes
6
replies
1.8k
views
Change the number of clusters with scater
scater scran scrnaseq clustering
updated 5.6 years ago by ★ 28k • written 5.6 years ago by ▴ 20
0
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3
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1.2k
views
Coverage profile comparison
Targeted sequencing correlation coverage euclid clustering
5.7 years ago faramer86 • 0
3
votes
3
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1.1k
views
how to plot trends for differentialy expressed genes from normalized count matrix (EdgeR)
edger clustering visualization
updated 5.7 years ago by 66k • written 5.7 years ago by ▴ 10
0
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0
replies
686
views
DESeq aligned with HOPACH for clustering
clustering
5.9 years ago ss • 0
7
votes
6
replies
5.9k
views
scaling data for clustering heat map
edger heatmap clustering differential gene expression rnaseq
updated 6.0 years ago by 51k • written 6.0 years ago by ▴ 60
0
votes
4
replies
1.6k
views
Why SPADE package has been removed from bioconductor?
spade release remove clustering
updated 6.1 years ago by 66k • written 6.1 years ago by • 0
0
votes
1
reply
1.0k
views
Global Trend Analysis using results from EdgeR
EdgeR clustering differential gene expression consensusclusterplus kmeans
updated 6.1 years ago by ★ 28k • written 6.2 years ago by • 0
0
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0
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1.1k
views
Add samples labels with ConsensusClusterPlus
consensusclusterplus microarray clustering
6.2 years ago aagata.szymanek • 0
1
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0
replies
1.4k
views
Job: UK/EU funded PhD Studentship: Detecting novel subtypes of cancer using data science and machine learning
PhD clustering cancer Job
6.5 years ago • updated 6.2 years ago Daniel Brewer ▴ 100
1
vote
3
replies
1.3k
views
Clustering of samples based on specific gene sets
microarray differential gene expression gene set analysis clustering
6.3 years ago cherlyn.t • 0
0
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1
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1.0k
views
ConsensusClusterPlus without figures
clustering
updated 3 months ago by • 0 • written 6.6 years ago by • 0
0
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4
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1.3k
views
Gene clusters based on gene expression across samples
kmeans gene expression clustering
6.7 years ago • updated 6.6 years ago Jane Merlevede ▴ 90
0
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2
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2.0k
views
How to use RUVSeq in clustering problems?
ruvseq rna-seq clustering
updated 6.7 years ago by ▴ 950 • written 6.7 years ago by ▴ 50
0
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5
replies
2.6k
views
Choosing genes for clustering
limma clustering differential gene expression hierarchical clustering feature selection
6.8 years ago • updated 6.7 years ago lirongrossmann ▴ 80
1
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3
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1.6k
views
Selecting genes that best separate between two groups
limma genefilter ttest clustering TPM
6.8 years ago lirongrossmann ▴ 80
11
votes
8
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11k
views
Limma and batch effect
limma differential gene expression clustering removebatcheffect
updated 6.8 years ago by 51k • written 6.8 years ago by ▴ 80
0
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2
replies
4.6k
views
When is centering and scaling needed before doing hierarchical clustering?
clustering hierarchical clustering
written 6.8 years ago by ▴ 20
0
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1
reply
2.0k
views
Observation/case weighting in cluster analysis in R
hclust hierarchical clustering clustering weight
updated 6.9 years ago by ★ 28k • written 6.9 years ago by • 0
6
votes
2
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5.4k
views
Cell type specific cell markers for Seurat based analysis.
single cell seurat clustering
updated 6.9 years ago by ▴ 40 • written 6.9 years ago by ▴ 20
1
vote
4
replies
1.5k
views
OrgDb for Tetrahymena thermophila
annotation clustering
updated 7.1 years ago by ★ 4.0k • written 7.1 years ago by • 0
1
vote
1
reply
6.3k
views
WGCNA: Different Detect Cut Heights Across Multiple Blocks
wgcna clustering gene expression
updated 7.2 years ago by ★ 3.0k • written 7.2 years ago by ▴ 10
3
votes
1
reply
9.9k
views
Error using function NbClust regarding multiple values in the argument "index" of package NbClust for getting the optimal number of clusters of a dat…
NbClust clustering looping list object function creation
updated 7.2 years ago by ▴ 20 • written 8.7 years ago by ▴ 830
1
vote
2
replies
2.3k
views
How to adjust the parameters of WGCNA
WGCNA RNA-seq co-expression network module clustering
updated 7.4 years ago by ★ 3.0k • written 7.4 years ago by • 0
1
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1
reply
2.4k
views
ConsensusClusterPlus matrix error
bioconductor clustering consensusclusterplus
7.4 years ago kyn ▴ 10
0
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5
replies
2.6k
views
Questions on using clusterProfiler
clustering clusterprofiler
7.7 years ago zhangducsu • 0
0
votes
1
reply
1.7k
views
Question about seed in ConsensusClusterPlus, can't repeat the result
bioconductor consensusclusterplus clustering
7.7 years ago afraTW • 0
0
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3
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2.1k
views
maSigPro genes from clusters
masigpro clustering
updated 4 weeks ago by • 0 • written 8.0 years ago by • 0
0
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0
replies
1.2k
views
Running Mclust package in R, using maximum a posteriori (MAP)
r mclust clustering
8.0 years ago mabdulsa • 0
0
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3
replies
2.4k
views
Prior Control with Mclust package
R mclust clustering
updated 8.0 years ago by ▴ 510 • written 8.0 years ago by • 0
2
votes
6
replies
3.0k
views
Clustering and bootstrapping of RNASeq samples
clustering pvclust vsd edgeR rnaseq
written 8.1 years ago by ▴ 90
50 results • Page 1 of 1
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Replies
Comment: Most enriched pathway is not expressed when modifying universe parameter by adripel • 0
Well, I was looking at the result table (enrich18k@result, or yy@result in your example), and it gives every pathway even the non-significa…
Comment: Trouble reading samplesheet in with diffbind to create dba by Mallory • 0
Thank you for your reply! There mustve been something wierd going on with my peak formats as you pointed out. I recalled all the peaks and …
Answer: Trouble reading samplesheet in with diffbind to create dba by Anthony • 0
I was struggling with this today too. For me it happened because my peak files were not in the correct format. The "10 elements" refers to …
Comment: gds in GEOmetadb 2023-06-26 version is empty by Frederico Moraes Ferreira ▴ 100
Try axel -n 20 https://gbnci.cancer.gov/geo/GEOmetadb.sqlite.gz
Comment: Most enriched pathway is not expressed when modifying universe parameter by James W. MacDonald 66k
The default for `enrichGO` is to subset to those with a p-value<0.05. You don't adjust that default argument, so you shouldn't have any GO …
Votes
A: dream vignette says limma-voom repeated measures two-group comparison needs two
Answer: Get the latest gene name from Entrez ID
Get the latest gene name from Entrez ID
Answer: biomaRt not working - lazy table error
Answer: How to do DESeq2 on Kallisto Data
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