Showing : WGCNA • reset
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865
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Multiple way network preservation
wgcna
2.7 years ago madzayasodara • 0
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0
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961
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WGCNA TOM file empty
WGCNA TOM
2.8 years ago gianni.drm • 0
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0
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1.6k
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WGCNA Heatmap and Export to Cytoscape Not Working
Cytoscape Heatmap heatmaps WGCNA
2.8 years ago gianni.drm • 0
0
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1
reply
1.6k
views
WGCNA soft thresholding suggesting a power of 1
independence thresholding WGCNA connectivity scale
updated 20 months ago by ▴ 740 • written 2.8 years ago by • 0
0
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1
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855
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In WGCNA which is the matrix on which the eigen decomposition is run to get the module eigen gene
WGCNA
updated 2.8 years ago by ▴ 50 • written 2.8 years ago by • 0
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0
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982
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Does verboseScatterplot in WGCNA package allow for highlighting a subset of genes
WGCNA
2.8 years ago S • 0
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0
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967
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Problems running WGCNA
WGCNA
2.9 years ago S • 0
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0
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795
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coexpression networks
WGCNA igraph
3.0 years ago María José • 0
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0
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919
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A question about GWENA R/Bioconductor package
proteomics GWENA Proteomics WGCNA
3.0 years ago Abdullah • 0
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0
replies
1.4k
views
WGCNA: minModuleSize is not responding correctly
Network minModuleSize WGCNA wgcna
3.0 years ago • updated 13 months ago bioinformaticssrm2011 • 0
2
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1
reply
1.3k
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WGCNA: weird issue of module with a single gene
network co-expression WGCNA
updated 3.2 years ago by ▴ 50 • written 3.2 years ago by ▴ 10
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1
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1.6k
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WGCNA - Network construction and module detection
gene Clustering wgcna flashclust
updated 3.2 years ago by ▴ 50 • written 3.2 years ago by ▴ 20
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0
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825
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MM-GS plot doesn't show any negative correlation
wgcna
3.3 years ago shubhankar.pawar • 0
0
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1
reply
1.7k
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WGCNA Export Eigengene Adjacency/Correlation values export
WGCNA
updated 3.3 years ago by • 0 • written 3.3 years ago by • 0
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0
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984
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ARACNe Sample Size
grndata GRN ARACNE WGCNA
3.4 years ago Harrsha • 0
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0
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843
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Enrichment in genomic regions
Enrichment clusterPro WGCNA
3.4 years ago María José • 0
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0
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1.0k
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How to create consensus network from SampledBlockwiseModules in WGCNA?
NetworkInference SampledBlockWiseModules WGCNA
3.4 years ago as8020 • 0
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0
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606
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WGCNA consensusMEDdissimilrity
WGCNA
3.5 years ago María José • 0
1
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3
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2.5k
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WGCNA error
WGCNA
3.5 years ago ayabalbaa1990 • 0
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0
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1.3k
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The gene clusters from the WGCNA dendrogram output are not in order
Clustering WGCNA
3.5 years ago chiwut.wong • 0
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0
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1.0k
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FILTER GENES FOR WGCNA
WGCNA
3.5 years ago María José • 0
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0
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1.2k
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Only 1 gene/ feature is present in module after WGCNA analysis
RNASeq Clustering cluster WGCNA
3.6 years ago chiwut.wong • 0
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2
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2.2k
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WGCNA: Picking soft threshold before and after batch effect correction for Microbial data
wgcna WGCNA
written 3.6 years ago by • 0
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0
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837
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WGCNA analsyis: Cytoscape visualization (Error in recalculating topological overlap)
analsyis WGCNA
3.6 years ago Amazing570 • 0
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0
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1.1k
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WGCNA with large Methylation matrix
wgcna R WGCNA Methylation
3.8 years ago Lorenzo • 0
0
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1
reply
1.0k
views
adjacency matrix in WGCNA returns NA
Coexpressionnetwork WGCNA
written 3.8 years ago by • 0
0
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1
reply
1.9k
views
WGCNA: Obtaining a consensus network from sampledBlockwiseModules function output
Network consensus sampledBlockwiseModules resampling WGCNA
updated 3.8 years ago by ★ 3.0k • written 3.9 years ago by ▴ 30
0
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1
reply
1.6k
views
WGCNA Preservation error
preservation WGCNA
updated 22 months ago by • 0 • written 3.9 years ago by • 0
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1
reply
1.5k
views
Outlier Removal WGCNA
RNASeq WGCNA
updated 3.9 years ago by 6.7k • written 3.9 years ago by ▴ 10
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0
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1.2k
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Removing low count/low variance genes
WGCNA
3.9 years ago Aya • 0
2
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9
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6.2k
views
Deseq2 normalization for WGCNA
RNASeq Deseq2 DESeq2 WGCNA
updated 3.5 years ago by 43k • written 3.9 years ago by ▴ 10
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0
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2.2k
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How to choose singed or unsigned network in step-by-step WGCNA
WGCNA
3.9 years ago synat.keam • 0
0
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1
reply
1.4k
views
Trouble with gene dendrogram
Network RNASeq WGCNA
updated 2.8 years ago by • 0 • written 4.0 years ago by ▴ 10
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3
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2.3k
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Problem getting soft threshold power using WGCNA for RNA-seq data
RNASeq WGCNA
4.0 years ago jms2520 ▴ 10
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1
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1.7k
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Summarising WGCNA data with modules and their corresponding gene ID and statistics
RNASeq WGCNA
4.0 years ago synat.keam • 0
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0
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997
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WGCNA Consensus Module Sign Question
wgcna
4.1 years ago erik.burchard • 0
0
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2
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1.3k
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WGCA tutorial related question
WGCNA
4.1 years ago wes • 0
0
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0
replies
1.3k
views
WGCNA error during network construction
WGCNA Network R
4.1 years ago gitanjali • 0
0
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1
reply
2.1k
views
pre-proccessing of TCGA data for WGCNA
TCGAbiolinks WGCNA
updated 4.2 years ago by 43k • written 4.2 years ago by • 0
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0
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912
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WGCNA out of memory
wgcna RNASeq
4.3 years ago zli1 • 0
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2
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3.0k
views
WGCNA adjust p value
WGCNA
written 4.3 years ago by ▴ 40
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0
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815
views
Working with Binary Categorical Data using WGCNA and Unsigned Networks
WGCNA
4.4 years ago schum266 ▴ 10
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1
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1.7k
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Determining number of genes in each module based on color in WGCNA package
WGCNA
4.4 years ago schum266 ▴ 10
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1
reply
1.0k
views
Query regarding WGCNA module formation
WGCNA RNAseq RNASeqData
updated 4.4 years ago by ▴ 760 • written 4.5 years ago by • 0
0
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1
reply
891
views
Query regarding WGCNA module
WGCNA
updated 4.5 years ago by ▴ 50 • written 4.5 years ago by • 0
0
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1
reply
2.7k
views
Removing batch effect by sva or combat and subsequent correlation analysis by WGCNA
WGCNA impute sva
updated 4.5 years ago by ▴ 60 • written 4.5 years ago by • 0
1
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1
reply
1.6k
views
No genes with Module Membership > 0.8
wgcna WGCNA hubgenes
updated 4.6 years ago by ▴ 70 • written 4.8 years ago by ▴ 10
10
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1
reply
5.3k
views
WGCNA: Module preservation vs consensus analysis
WGCNA wgcna
updated 4.6 years ago by ▴ 70 • written 4.7 years ago by ▴ 60
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0
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1.3k
views
Consensus wgcna soft threshold for each data
Transcriptomics WGCNA wgcna
4.6 years ago 2323982403 ▴ 60
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0
replies
1.2k
views
Sample size on Differential Network Analysis
coexpression WGCNA
4.7 years ago Hanna ▴ 10
335 results • Page 2 of 7
Recent ...
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Comment: Getting a large intercept with DESeq2 by James W. MacDonald 68k
As a trivial example, consider this: ``` > model.matrix(~Treatment, data.frame(Treatment = factor(rep(1:3, each = 4)))) (Intercept) Tre…
Answer: Getting a large intercept with DESeq2 by James W. MacDonald 68k
The default parameterization in R is a treatment-contrasts parameterization that sets one of your groups as the baseline. So the intercept …
Answer: Must I do pseudobulk analysis on Cell Surface Protein Labeling data of Single C by ATpoint ★ 5.0k
There is no "MUST", but pseudobulk aggregation is beneficial to a) enable use of tested and robust methods such as limma (though it could u…
Answer: Post translational modifications and phosphoproteomics in limpa? by Gordon Smyth 53k
Yes, we use limpa for PTMs ourselves. I assume your data is preprocessed so that each row corresponds to a PTM. You replace dpcQuant() with…
Comment: What R/Bioconductor tools would you recommend for the analysis of sncRNA, specif by Matthew Thornton ▴ 380
WOW! Thank you so much for the information. I will do this.
Votes
Answer: What R/Bioconductor tools would you recommend for the analysis of sncRNA, specif
Using edgeR or DESeq2 to analyze allele-specific expression?
Answer: DESeq2 design for haplotype MPRA
Answer: Failure to download resources (MeSHDb) from AnnotationHub
Answer: Failure to download resources (MeSHDb) from AnnotationHub
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