Functions necessary to perform Weighted Correlation Network Analysis on high-dimensional data as originally described in Horvath and Zhang (2005) <doi:10.2202/1544-6115.1128> and Langfelder and Horvath (2008) <doi:10.1186/1471-2105-9-559>. Includes functions for rudimentary data cleaning, construction of correlation networks, module identification, summarization, and relating of variables and modules to sample traits. Also includes a number of utility functions for data manipulation and visualization.
Cited in
(91)- Frontiers in mathematical modelling of the lipid metabolism under normal conditions and its alterations in heart diseases
- Gene regulatory networks. Methods and protocols
- Computational cell biology. Methods and protocols
- Review on statistical methods for gene network reconstruction using expression data
- Network-based survival analysis to discover target genes for developing cancer immunotherapies and predicting patient survival
- A testing based approach to the discovery of differentially correlated variable sets
- Deep learning for inferring gene relationships from single-cell expression data
- Sparse factor model for co-expression networks with an application using prior biological knowledge
- The cluster correlation-network support vector machine for high-dimensional binary classification
- A global and physical mechanism of gastric cancer formation and progression
- Method of the Joint Clustering in Network and Correlation Spaces
- Network modeling in biology: statistical methods for gene and brain networks
- fdrtool
- dynamicTreeCut
- huge
- minet
- GUniFrac
- minerva
- ESSC
- FAMT
- hglasso
- spcov
- SynTReN
- BioNet
- NIH Toolbox
- Diffcorr
- qgraph
- PyPanda
- topologyGSA
- Knorm
- ARACNE
- LAS
- DCGL
- DGCA
- rvinecopulib
- VennDiagram
- SAM
- missMethyl
- Matrix eQTL
- graphite
- wTO
- GCTA
- vis.js
- minepy
- c060
- SC3
- Sincera
- MRPC
- GSNCA
- maigesPack
- MIM
- DNA
- DINGO
- SCENIC
- GenClust
- MMS
- CIDR
- FATCAT
- TestBMN
- HotNet
- powsimR
- MrTADFinder
- psychonetrics
- DREAM4
- CorShrink
- scola
- MACP
- Patterns
- DrDimont
- scpoisson
- GeneFriends
- PLANEX
- DiPALM
- molnet
- TGCnA: temporal gene coexpression network analysis using a low-rank plus sparse framework
- FREEtree
- DCD
- eclust
- sparseGAM
- Clustering methods for single-cell RNA-sequencing expression data: performance evaluation with varying sample sizes and cell compositions
- Network assisted analysis to reveal the genetic basis of autism
- BioM2
- TOmicsVis
- netReg
- TGCnA
- A statistical method for measuring activation of gene regulatory networks
- A co-expression modules based gene selection for cancer recognition
- Loss of conservation of graph centralities in reverse-engineered transcriptional regulatory networks
- Statistical properties of gene-gene correlations in omics experiments
- A method for generating realistic correlation matrices
- Quantitative integration of radiomic and genomic data improves survival prediction of low-grade glioma patients
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