Showing : wgcna • reset
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Multiple way network preservation
wgcna
2.7 years ago madzayasodara • 0
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949
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WGCNA TOM file empty
WGCNA TOM
2.7 years ago gianni.drm • 0
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0
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1.5k
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WGCNA Heatmap and Export to Cytoscape Not Working
Cytoscape Heatmap heatmaps WGCNA
2.7 years ago gianni.drm • 0
0
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1
reply
1.6k
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WGCNA soft thresholding suggesting a power of 1
independence thresholding WGCNA connectivity scale
updated 20 months ago by ▴ 740 • written 2.7 years ago by • 0
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1
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838
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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 2.7 years ago by ▴ 50 • written 2.7 years ago by • 0
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973
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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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958
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Problems running WGCNA
WGCNA
2.9 years ago S • 0
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0
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782
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coexpression networks
WGCNA igraph
2.9 years ago María José • 0
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909
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A question about GWENA R/Bioconductor package
proteomics GWENA Proteomics WGCNA
2.9 years ago Abdullah • 0
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0
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1.4k
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WGCNA: minModuleSize is not responding correctly
Network minModuleSize WGCNA wgcna
2.9 years ago • updated 13 months ago bioinformaticssrm2011 • 0
2
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1
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1.2k
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WGCNA: weird issue of module with a single gene
network co-expression WGCNA
updated 3.1 years ago by ▴ 50 • written 3.1 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 3.1 years ago by ▴ 50 • written 3.2 years ago by ▴ 20
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818
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MM-GS plot doesn't show any negative correlation
wgcna
3.2 years ago shubhankar.pawar • 0
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1
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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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967
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ARACNe Sample Size
grndata GRN ARACNE WGCNA
3.3 years ago Harrsha • 0
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831
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Enrichment in genomic regions
Enrichment clusterPro WGCNA
3.3 years ago María José • 0
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0
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972
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How to create consensus network from SampledBlockwiseModules in WGCNA?
NetworkInference SampledBlockWiseModules WGCNA
3.3 years ago as8020 • 0
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599
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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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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
3.5 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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827
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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
3.7 years ago Lorenzo • 0
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1
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997
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adjacency matrix in WGCNA returns NA
Coexpressionnetwork WGCNA
written 3.7 years ago by • 0
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1
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1.9k
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WGCNA: Obtaining a consensus network from sampledBlockwiseModules function output
Network consensus sampledBlockwiseModules resampling WGCNA
updated 3.7 years ago by ★ 3.0k • written 3.8 years ago by ▴ 30
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1
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1.6k
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WGCNA Preservation error
preservation WGCNA
updated 21 months ago by • 0 • written 3.8 years ago by • 0
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1
reply
1.5k
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Outlier Removal WGCNA
RNASeq WGCNA
updated 3.8 years ago by 6.7k • written 3.8 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
3.8 years ago Aya • 0
2
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9
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6.1k
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Deseq2 normalization for WGCNA
RNASeq Deseq2 DESeq2 WGCNA
updated 3.5 years ago by 43k • written 3.8 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
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1
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1.4k
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Trouble with gene dendrogram
Network RNASeq WGCNA
updated 2.8 years ago by • 0 • written 3.9 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
3.9 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
3.9 years ago synat.keam • 0
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0
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983
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WGCNA Consensus Module Sign Question
wgcna
4.0 years ago erik.burchard • 0
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2
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1.3k
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WGCA tutorial related question
WGCNA
4.0 years ago wes • 0
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0
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1.2k
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WGCNA error during network construction
WGCNA Network R
4.1 years ago gitanjali • 0
0
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1
reply
2.1k
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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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895
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WGCNA out of memory
wgcna RNASeq
4.2 years ago zli1 • 0
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2
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3.0k
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WGCNA adjust p value
WGCNA
written 4.2 years ago by ▴ 40
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0
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803
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Working with Binary Categorical Data using WGCNA and Unsigned Networks
WGCNA
4.3 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
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Query regarding WGCNA module formation
WGCNA RNAseq RNASeqData
updated 4.4 years ago by ▴ 760 • written 4.4 years ago by • 0
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1
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872
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Query regarding WGCNA module
WGCNA
updated 4.4 years ago by ▴ 50 • written 4.4 years ago by • 0
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1
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2.6k
views
Removing batch effect by sva or combat and subsequent correlation analysis by WGCNA
WGCNA impute sva
updated 4.4 years ago by ▴ 60 • written 4.4 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
5.2k
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
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Consensus wgcna soft threshold for each data
Transcriptomics WGCNA wgcna
4.6 years ago 2323982403 ▴ 60
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0
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1.2k
views
Sample size on Differential Network Analysis
coexpression WGCNA
4.6 years ago Hanna ▴ 10
335 results • Page 2 of 7
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Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in by James W. MacDonald 68k
Aaron already answered your question. If you have an HDF5 file, it will be read in as a `TENxMatrix` object, which isn't actually read in -…
Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in by dan.gatti • 0
Very strange. We have the same package versions. I tried adding the mtx.class, type, and delayed arguments, but it's still making the coun…
Comment: DESeq2 for candidate gene analysis by piffelpaff ▴ 20
thank you so much for answering Dr. Love!
Answer: DESeq2 for candidate gene analysis by Michael Love 43k
Your plan 1 is reasonable. Run DESeq2 on the whole dataset to obtain size factors and moderated dispersion estimates and then extract the u…
Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in by James W. MacDonald 68k
Oh. ``` > z <- read10xCounts(c(tmpdir, tmpdir), mtx.class = "SVT_SparseMatrix", delayed = TRUE) > class(counts(z)) [1] "DelayedMatrix" att…
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A: Multi-level experiments in Limma
Answer: Should voomWithQualityWeights still be used when the sample-specific weights var
Answer: DESeq2 for candidate gene analysis
DESeq2 for candidate gene analysis
Answer: DESeq2 for candidate gene analysis
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