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This function reads the sample names of genes and get unique tissue information for further tissue-specific genes finding and clustering.
● Data Source:
CranContrib
● Keywords: tissue specific
● Alias: uniqueTissues
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This function provides a graphical user interface (GUI) to perform the correlation and clustering analysis via a series of mouse actions without command-line based R programmming. The output of clustering informaiton in "CDT" format can be further visulized and analyzed by TreeView program.
● Data Source:
CranContrib
● Keywords: cluster, correlation
● Alias: rsgcc.gui
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This package provides functions for calculating the Gini, the Pearson, the Spearman, the Kendall and Tukey's Biweight correlations, Compared to the other mentioned correlation methods, the GCC may perform better to detect regulatory relationships from gene expression data. In addition, the GCC also has some other advantageous merits, such as independent of distribution forms, more capable of detecting non-linear relationships, more tolerant to outliers and less dependence on sample size. For more information about these correlation methods, please refer to (Ma and Wang, 2012). This package also provides an graphical user interface (GUI) to perform clustering analysis of microarray and RNA-Seq data in a coherent step-by-step manner.
● Data Source:
CranContrib
● Keywords: package
● Alias: rsgcc, rsgcc-package
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onegcc calcluates one Gini correlation coefficient with rank information of the first variable.
● Data Source:
CranContrib
● Keywords: correlation
● Alias: onegcc
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This function identifies tissue(or condition)- specific genes by considering the difference between the mean expression value of one tissue and the max expression value of other tissue.
● Data Source:
CranContrib
● Keywords: tissue specific
● Alias: getsgene
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This function performs the correlaiton and clustering analysis of tissue-specific genes with expression data generated from microarray and RNA-Seq experiments.
● Data Source:
CranContrib
● Keywords: cluster, tissue specific
● Alias: gcc.tsheatmap
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The heat map is a color imange representing the data in the a matrix. The dendrogram information are usually added to the left side and/or to the top for displaying the clustering information.
● Data Source:
CranContrib
● Keywords: cluster
● Alias: gcc.heatmap
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Hierarchical cluster analysis of microarrany and RNA-Seq gene expression data with Gini correlation and four other correlation methods.
● Data Source:
CranContrib
● Keywords: cluster
● Alias: gcc.hclust
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This function computes the distance between the rows of a data matrix with the specified distance method.
● Data Source:
CranContrib
● Keywords: cluster
● Alias: gcc.dist
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Compare two correlations produced by GCC method for a gene pair, and choose one as the final output of GCC method.
● Data Source:
CranContrib
● Keywords: correlation
● Alias: gcc.corfinal
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providing 
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