Showing : WGCNA • reset
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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 4 days ago by ▴ 50 • written 7 days ago by • 0
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88
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Does verboseScatterplot in WGCNA package allow for highlighting a subset of genes
WGCNA
11 days ago S • 0
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115
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Problems running WGCNA
WGCNA
6 weeks ago S • 0
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108
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coexpression networks
WGCNA igraph
9 weeks ago María José • 0
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80
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A question about GWENA R/Bioconductor package
proteomics GWENA Proteomics WGCNA
9 weeks ago Abdullah • 0
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97
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using WGCNA, positive or negative corrlation between genes composing modules.
correlation wgcna network
10 weeks ago pharamac • 0
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108
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WGCNA: minModuleSize is not responding correctly
wgcna Network WGCNA minModuleSize
10 weeks ago • updated 9 weeks ago bioinformaticssrm2011 • 0
2
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1
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197
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WGCNA: weird issue of module with a single gene
network co-expression WGCNA
updated 4 months ago by ▴ 50 • written 4 months ago by ▴ 10
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1
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233
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WGCNA - Network construction and module detection
gene Clustering wgcna flashclust
updated 5 months ago by ▴ 50 • written 5 months ago by • 0
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141
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MM-GS plot doesn't show any negative correlation
wgcna
6 months ago shubhankar.pawar • 0
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294
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WGCNA Export Eigengene Adjacency/Correlation values export
WGCNA
updated 6 months ago by • 0 • written 6 months ago by • 0
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163
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ARACNe Sample Size
grndata GRN ARACNE WGCNA
6 months ago Harrsha • 0
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139
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Enrichment in genomic regions
Enrichment clusterPro WGCNA
7 months ago María José • 0
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162
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How to create consensus network from SampledBlockwiseModules in WGCNA?
NetworkInference SampledBlockWiseModules WGCNA
7 months ago as8020 • 0
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0
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142
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WGCNA consensusMEDdissimilrity
WGCNA
8 months ago María José • 0
1
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3
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651
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WGCNA error
WGCNA
9 months ago ayabalbaa1990 • 0
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237
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The gene clusters from the WGCNA dendrogram output are not in order
Clustering WGCNA
9 months ago chiwut.wong • 0
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219
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FILTER GENES FOR WGCNA
WGCNA
9 months ago María José • 0
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283
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Only 1 gene/ feature is present in module after WGCNA analysis
RNASeq Clustering cluster WGCNA
9 months ago chiwut.wong • 0
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0
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360
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WGCNA: Picking soft threshold before and after batch effect correction for Microbial data
wgcna WGCNA
10 months ago bioinformaticssrm2011 • 0
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233
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WGCNA analsyis: Cytoscape visualization (Error in recalculating topological overlap)
analsyis WGCNA
10 months ago Afsana • 0
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285
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WGCNA with large Methylation matrix
wgcna R WGCNA Methylation
12 months ago Lorenzo • 0
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1
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283
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adjacency matrix in WGCNA returns NA
Coexpressionnetwork WGCNA
written 12 months ago by • 0
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1
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455
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WGCNA: Obtaining a consensus network from sampledBlockwiseModules function output
Network consensus sampledBlockwiseModules resampling WGCNA
updated 12 months ago by ★ 2.7k • written 13 months ago by ▴ 30
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418
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WGCNA Preservation error
preservation WGCNA
13 months ago Sara • 0
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1
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468
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Outlier Removal WGCNA
RNASeq WGCNA
updated 13 months ago by 6.6k • written 13 months ago by • 0
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443
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Removing low count/low variance genes
WGCNA
13 months ago Aya • 0
1
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9
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1.8k
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Deseq2 normalization for WGCNA
RNASeq Deseq2 DESeq2 WGCNA
updated 9 months ago by 39k • written 13 months ago by • 0
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351
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WGCNA correlation sign differences between eigen genes/ hub genes and clinical traits
hub correlation eigen WGCNA
14 months ago mairah.khan • 0
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484
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How to choose singed or unsigned network in step-by-step WGCNA
WGCNA
14 months ago synat.keam • 0
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427
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Trouble with gene dendrogram
Network RNASeq WGCNA
updated 22 days ago by • 0 • written 14 months ago by • 0
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3
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878
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Problem getting soft threshold power using WGCNA for RNA-seq data
RNASeq WGCNA
14 months ago jms2520 • 0
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1
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357
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Summarising WGCNA data with modules and their corresponding gene ID and statistics
RNASeq WGCNA
14 months ago synat.keam • 0
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268
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WGCNA Consensus Module Sign Question
wgcna
15 months ago erik.burchard • 0
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2
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441
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WGCA tutorial related question
WGCNA
15 months ago wes • 0
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309
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WGCNA error during network construction
WGCNA Network R
16 months ago gitanjali • 0
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1
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549
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pre-proccessing of TCGA data for WGCNA
TCGAbiolinks WGCNA
updated 17 months ago by 39k • written 17 months ago by • 0
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290
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WGCNA out of memory
wgcna RNASeq
18 months ago zli1 • 0
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1
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865
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WGCNA adjust p value
WGCNA
updated 18 months ago by 3.7k • written 18 months ago by ▴ 30
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314
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Working with Binary Categorical Data using WGCNA and Unsigned Networks
WGCNA
19 months ago schum266 • 0
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1
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616
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Determining number of genes in each module based on color in WGCNA package
WGCNA
19 months ago schum266 • 0
0
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1
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397
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Query regarding WGCNA module formation
WGCNA RNAseq RNASeqData
updated 20 months ago by ▴ 700 • written 20 months ago by • 0
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1
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348
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Query regarding WGCNA module
WGCNA
updated 20 months ago by ▴ 50 • written 20 months ago by • 0
0
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1
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847
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Removing batch effect by sva or combat and subsequent correlation analysis by WGCNA
WGCNA impute sva
updated 20 months ago by ▴ 50 • written 20 months ago by • 0
1
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1
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586
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No genes with Module Membership > 0.8
wgcna WGCNA hubgenes
updated 22 months ago by ▴ 50 • written 2.1 years ago by ▴ 10
6
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1
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2.1k
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WGCNA: Module preservation vs consensus analysis
WGCNA wgcna
updated 22 months ago by ▴ 50 • written 23 months ago by ▴ 20
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0
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472
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Consensus wgcna soft threshold for each data
Transcriptomics WGCNA wgcna
22 months ago 2323982403 ▴ 50
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362
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Sample size on Differential Network Analysis
coexpression WGCNA
23 months ago Hanna ▴ 10
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2
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815
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WGCNA - Outliers after creating sample tree
MicroarrayData WGCNA Microarray
23 months ago jpwl2 • 0
0
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1
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687
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Differential Network analysis
WGCNA
updated 23 months ago by 3.7k • written 23 months ago by ▴ 10
50 results • Page 1 of 1
Recent ...
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Comment: mas5calls function doesn't work; mirna40cdf problem by James W. MacDonald 62k
Yes. Follow the recommendation in the link that was provided to you by Lori Shepherd.
Comment: mas5calls function doesn't work; mirna40cdf problem by Berna • 0
Thank you for the information. I did not know that. Would you have a tip how I could proceed differently?
Comment: Correct use of Likelihood Ratio Test and LFC Shrinkage by ayabalbaa1990 • 0
Hi Michael, So I use this res_LRT <- results(dds_lrt) r2=lfcShrink(dds_lrt, coef=7, res=res_LRT) tu run lfcshrink with LRT, is that oko?…
Comment: Combat and dds Object by shaimaa • 0
I used the combat-seq but the deseq complain as its not integer what should i do
Answer: Different summary() and results() values in DeSeq2 by Basti ▴ 540
summary() tells you the number of genes with low counts, see independant filtering of results in the DESeq2 vignette : https://www.biocondu…
Votes
Answer: mas5calls function doesn't work; mirna40cdf problem
Issue with bumphunter and TxDb.Hsapiens.UCSC.hg38.knownGene that could be due to S4Vectors or an installation problem
Strand information in a GAlignmentsList object derived from strand-specific paired-end RNA-seq data
Strand information in a GAlignmentsList object derived from strand-specific paired-end RNA-seq data
A: How to translate FASTA file of DNA sequence to protein sequence using Biostrings
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Popular Question to Guido Hooiveld ★ 3.5k
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