Showing : clustering • reset
0
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0
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47
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The gene clusters from the WGCNA dendrogram output are not in order
Clustering WGCNA
22 days ago chiwut.wong • 0
0
votes
0
replies
73
views
Only 1 gene/ feature is present in module after WGCNA analysis
RNASeq Clustering cluster WGCNA
5 weeks ago chiwut.wong • 0
0
votes
1
reply
99
views
Error running hierClust
hierClust R SNPs clustering
updated 7 weeks ago by 59k • written 7 weeks ago by • 0
0
votes
0
replies
198
views
ConsensusClusterPlus: annotate a class to the heatmap
Clustering ConsensusClusterPlus
8 months ago Gian ▴ 30
3
votes
2
replies
642
views
Clustering differentially expressed genes in response to multiple treatments (using edgeR)
edger complexheatmap R clustering
updated 2.1 years ago by 45k • written 2.1 years ago by • 0
0
votes
4
replies
394
views
coseq plotting error: no method for coercing this S4 class to a vector
coseq RNAseq clustering
updated 2.3 years ago by ▴ 80 • written 2.3 years ago by ▴ 20
0
votes
1
reply
1.1k
views
Evaluating HCPC clusters from FactoMineR using cluster.stats from fpc library
clustering r fpc FactoMineR
2.8 years ago anahochmanova • 0
0
votes
3
replies
412
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 3.0 years ago by 59k • written 3.0 years ago by • 0
0
votes
6
replies
726
views
edgeR removing batch effect before using expression data for clustering
edger r batcheffect clustering removeBatchEffect
updated 3.0 years ago by 59k • written 3.0 years ago by ▴ 90
0
votes
1
reply
520
views
Consensus Cluster Plus pre-computed distance matrix
consensusclusterplus distance clustering
updated 3.2 years ago by ▴ 400 • written 3.2 years ago by • 0
1
vote
2
replies
707
views
Dunn Index for Clusters from scRNA-Seq
scRNA-Seq clustering scater scran dunn index
updated 3.2 years ago by ★ 27k • written 3.2 years ago by ▴ 50
2
votes
4
replies
1.2k
views
Silhouette Plots for Clustering Quality (Multiple Algorithm)
scRNA-Seq RNA-Seq Clustering Silhouette Plot
updated 3.3 years ago by ★ 27k • written 3.3 years ago by ▴ 50
2
votes
6
replies
787
views
Change the number of clusters with scater
scater scran scrnaseq clustering
updated 3.5 years ago by ★ 27k • written 3.5 years ago by ▴ 20
0
votes
3
replies
580
views
Coverage profile comparison
Targeted sequencing correlation coverage euclid clustering
3.6 years ago faramer86 • 0
3
votes
3
replies
561
views
how to plot trends for differentialy expressed genes from normalized count matrix (EdgeR)
edger clustering visualization
updated 3.6 years ago by 59k • written 3.6 years ago by • 0
0
votes
0
replies
368
views
DESeq aligned with HOPACH for clustering
clustering
3.8 years ago ss • 0
6
votes
6
replies
3.6k
views
scaling data for clustering heat map
edger heatmap clustering differential gene expression rnaseq
updated 4.0 years ago by 45k • written 4.0 years ago by ▴ 50
0
votes
4
replies
813
views
Why SPADE package has been removed from bioconductor?
spade release remove clustering
updated 4.0 years ago by 59k • written 4.0 years ago by • 0
0
votes
1
reply
497
views
Global Trend Analysis using results from EdgeR
EdgeR clustering differential gene expression consensusclusterplus kmeans
updated 4.1 years ago by ★ 27k • written 4.1 years ago by • 0
0
votes
0
replies
505
views
Add samples labels with ConsensusClusterPlus
consensusclusterplus microarray clustering
4.1 years ago aagata.szymanek • 0
1
vote
0
replies
821
views
Job: UK/EU funded PhD Studentship: Detecting novel subtypes of cancer using data science and machine learning
PhD clustering cancer Job
4.4 years ago • updated 4.2 years ago Daniel Brewer ▴ 90
1
vote
3
replies
600
views
Clustering of samples based on specific gene sets
microarray differential gene expression gene set analysis clustering
4.2 years ago cherlyn.t • 0
0
votes
0
replies
510
views
ConsensusClusterPlus without figures
clustering
4.5 years ago jasonji_19950808 • 0
0
votes
4
replies
708
views
Gene clusters based on gene expression across samples
kmeans gene expression clustering
4.6 years ago • updated 4.5 years ago Jane Merlevede ▴ 90
0
votes
2
replies
1.1k
views
How to use RUVSeq in clustering problems?
ruvseq rna-seq clustering
updated 4.6 years ago by ▴ 890 • written 4.6 years ago by ▴ 50
0
votes
5
replies
1.2k
views
Choosing genes for clustering
limma clustering differential gene expression hierarchical clustering feature selection
4.7 years ago lirongrossmann ▴ 60
1
vote
3
replies
763
views
Selecting genes that best separate between two groups
limma genefilter ttest clustering TPM
4.7 years ago lirongrossmann ▴ 60
10
votes
8
replies
5.7k
views
Limma and batch effect
limma differential gene expression clustering removebatcheffect
updated 4.7 years ago by 45k • written 4.7 years ago by ▴ 60
0
votes
1
reply
2.9k
views
When is centering and scaling needed before doing hierarchical clustering?
clustering hierarchical clustering
updated 4.8 years ago by ▴ 400 • written 4.8 years ago by ▴ 20
0
votes
1
reply
1.3k
views
Observation/case weighting in cluster analysis in R
hclust hierarchical clustering clustering weight
updated 4.8 years ago by ★ 27k • written 4.8 years ago by • 0
6
votes
2
replies
3.7k
views
Cell type specific cell markers for Seurat based analysis.
single cell seurat clustering
updated 4.9 years ago by ▴ 40 • written 4.9 years ago by ▴ 20
1
vote
4
replies
844
views
OrgDb for Tetrahymena thermophila
annotation clustering
updated 5.0 years ago by ★ 3.2k • written 5.0 years ago by • 0
1
vote
1
reply
4.2k
views
WGCNA: Different Detect Cut Heights Across Multiple Blocks
wgcna clustering gene expression
updated 5.1 years ago by ★ 2.6k • written 5.1 years ago by ▴ 10
3
votes
1
reply
7.1k
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 5.1 years ago by ▴ 20 • written 6.7 years ago by ▴ 780
1
vote
2
replies
1.5k
views
How to adjust the parameters of WGCNA
WGCNA RNA-seq co-expression network module clustering
updated 5.3 years ago by ★ 2.6k • written 5.3 years ago by • 0
1
vote
1
reply
1.1k
views
ConsensusClusterPlus matrix error
bioconductor clustering consensusclusterplus
5.3 years ago kyn ▴ 10
0
votes
5
replies
1.5k
views
Questions on using clusterProfiler
clustering clusterprofiler
5.6 years ago zhangducsu • 0
0
votes
1
reply
988
views
Question about seed in ConsensusClusterPlus, can't repeat the result
bioconductor consensusclusterplus clustering
5.6 years ago afraTW • 0
0
votes
2
replies
1.3k
views
maSigPro genes from clusters
masigpro clustering
updated 5.9 years ago by ▴ 90 • written 5.9 years ago by • 0
0
votes
0
replies
764
views
Running Mclust package in R, using maximum a posteriori (MAP)
r mclust clustering
6.0 years ago mabdulsa • 0
0
votes
3
replies
1.5k
views
Prior Control with Mclust package
R mclust clustering
updated 6.0 years ago by ▴ 510 • written 6.0 years ago by • 0
2
votes
6
replies
2.1k
views
Clustering and bootstrapping of RNASeq samples
clustering pvclust vsd edgeR rnaseq
written 6.0 years ago by ▴ 90
1
vote
3
replies
1.2k
views
WGCNA clustering configuration
clustering wgcna microarray
updated 6.0 years ago by ★ 2.6k • written 6.0 years ago by ▴ 660
0
votes
0
replies
576
views
Analysis of Various chemical compounds on Cytotoxity Cell lines
clustering normalization
6.0 years ago ramars • 0
2
votes
3
replies
2.3k
views
scran: question on minimum cluster size for computeSumFactors()
scran single cell normalization clustering
6.1 years ago aatsmith • 0
0
votes
1
reply
623
views
Plot with two separated groups of genes.
scatter-plot clustering
updated 6.1 years ago by ▴ 10 • written 6.1 years ago by • 0
1
vote
1
reply
569
views
Clustering like samples with a lot of data
clustering
6.1 years ago gaiusjaugustus • 0
2
votes
8
replies
1.7k
views
Clustering RNASeq samples from different libraries using DESeq2
clustering DESeq2
6.2 years ago Jane Merlevede ▴ 90
2
votes
16
replies
2.6k
views
Approaches to group the RNA-Seq samples with large heterogeneity
clustering pca deseq2 edger logfoldchange
updated 6.2 years ago by 37k • written 6.2 years ago by ▴ 10
1
vote
1
reply
4.8k
views
Mfuzz: fill.NA - Warning messages: argument is not numeric or logical: returning NA
mfuzz clustering bioinformatics proteomics timecourse
updated 6.2 years ago by 1.5k • written 6.2 years ago by • 0
50 results • Page 1 of 1
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Comment: ROC plot for OPLS-DA by etienne.thevenot ▴ 20
I would suggest to concatenate your training and testing data rowwise, and to apply the `opls` method with the subset parameter to select t…
Comment: regression analysis for epic array methylation data using limma by nabiyogesh ▴ 10
Dear Basti, thank you so much! Could you please also help me how to arrange samples in the same order in rows (targests2) and columns in (…
Comment: How to figure out the FC value from Limma by ATpoint ★ 1.2k
You probably have opened that file in Excel before. Get it again directly from GEO2R, or even better take the R script GEO2R offers and run…
Comment: regression analysis for epic array methylation data using limma by Basti ▴ 280
The columns of your design matrix `var` corresponds to the coefficients that are fitted by limma. If you check your design matrix, you will…
Comment: How to figure out the FC value from Limma by beslinail • 0
I tried to FC column to dbl from chr. But FC colomn is changed by NA genlist_filter <- read_csv(file = "AD_control5.csv") gen…
Votes
A: Can we use glmQLFit instead of glmFit and then glmLRT in edgeR
A: Can we use glmQLFit instead of glmFit and then glmLRT in edgeR
Answer: Limma for paired and unpaired samples. Strange number of DEGs in unpaired sample
A: Very low EdgeR Pvalues with very small sample size
A: Very low EdgeR Pvalues with very small sample size
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