Earth Mover's Distance for Differential Analysis of Genomics Data


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Documentation for package ‘EMDomics’ version 2.38.0

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emdomics-package Earth Mover's Distance algorithm for differential analysis of genomics data.
calculate_cvm Cramer von Mises for differential analysis of genomics data
calculate_cvm_gene Calculate CVM score for a single gene
calculate_emd Earth Mover's Distance for differential analysis of genomics data
calculate_emd_gene Calculate EMD score for a single gene
calculate_ks Calculate the Komolgorov-Smirnov test statistic and q-values for differential gene expression analysis.
calculate_ks_gene Calculate KS score for a single gene
CVMomics Create an CVMomics object
EMDomics Create an EMDomics object
KSomics Create an KSomics object
plot_cvmnull Plot null distribution of permuted cvm scores vs. calculated cvm scores.
plot_cvmperms Plot histogram of CVM scores calculated via random permutation.
plot_cvm_density Plot distributions and CVM score for a gene.
plot_emdnull Plot null distribution of permuted EMD scores vs. calculated EMD scores.
plot_emdperms Plot histogram of EMD scores calculated via random permutation.
plot_emd_density Plot distributions and EMD score for a gene.
plot_ksnull Plot null distribution of permuted ks scores vs. calculated ks scores.
plot_ksperms Plot histogram of KS scores calculated via random permutation.
plot_ks_density Plot distributions and KS score for a gene.