QUBIC - An R Package for Qualitative Biclustering in Support of Gene Co-Expression Analyses
The core function of this R package is to provide the implementation of the well-cited and well-reviewed QUBIC algorithm, aiming to deliver an effective and efficient biclustering capability. This package also includes the following related functions: (i) a qualitative representation of the input gene expression data, through a well-designed discretization way considering the underlying data property, which can be directly used in other biclustering programs; (ii) visualization of identified biclusters using heatmap in support of overall expression pattern analysis; (iii) bicluster-based co-expression network elucidation and visualization, where different correlation coefficient scores between a pair of genes are provided; and (iv) a generalize output format of biclusters and corresponding network can be freely downloaded so that a user can easily do following comprehensive functional enrichment analysis (e.g. DAVID) and advanced network visualization (e.g. Cytoscape).
Last updated
statisticalmethodmicroarraydifferentialexpressionmultiplecomparisonclusteringvisualizationgeneexpressionnetworkbioconductor-packagebioconductor-packagescppopenmp
6.24 score 4 stars 18 scripts 494 downloadsQUBICdata - Data employed in the vignette of the QUBIC package
The data employed in the vignette of the QUBIC package. These data belong to Many Microbe Microarrays Database and STRING v10.
Last updated
escherichia_coli_dataorganismdataexperimentdatadatapkg
3.30 score 1 stars 3 scripts