bioconda / packages / bioconductor-coexnet 1.9.0

coexnet: An R package to build CO-EXpression NETworks from Microarray Data


Info: This package contains files in non-standard labels.

conda install

  • noarch  v1.9.0
To install this package with conda run one of the following:
conda install -c bioconda bioconductor-coexnet
conda install -c bioconda/label/gcc7 bioconductor-coexnet


Extracts the gene expression matrix from GEO DataSets (.CEL files) as a AffyBatch object. Additionally, can make the normalization process using two different methods (vsn and rma). The summarization (pass from multi-probe to one gene) uses two different criteria (Maximum value and Median of the samples expression data) and the process of gene differentially expressed analisys using two methods (sam and acde). The construction of the co-expression network can be conduced using two different methods, Pearson Correlation Coefficient (PCC) or Mutual Information (MI) and choosing a threshold value using a graph theory approach.

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