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AIC_select()
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Tuning parameter selection by AIC |
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auroc()
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calculate area under ROC curve |
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check_ident_list()
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check if the list of block dimensions are the same for the different conditions |
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CountMap()
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Map scRNA-seq counts to a known covariance structure |
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generateBlki()
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generate the small matrix in block i |
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generateSigmaList()
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generate a list of covariance matrices with designed structures |
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getCondRelated()
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get the genes connected to a TARGET GENE under each condition. |
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getCountList()
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generate a list of raw count matrices based on the list of covariance matrices |
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getGENEbox()
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plot: boxplot for a specific gene by group |
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getGENEhist()
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plot: histogram of raw counts by group |
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getJGLTuningParamResult()
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Derive the Joint Graphical Lasso estimation result by AIC tuning parameter selection |
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getObservedList()
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create list of matrices according to conditions |
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getPathFreq()
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Given a set of genes, get the frequencies of genes in each pathway. |
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huge_stars_joint()
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The StARS tuning parameter selection method from package 'huge'. Adapted to JGL models. |
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Map2Pathways()
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Map the gene set of interest to the known pathways |
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plot_onenet()
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plot one network |
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prec2partialcorr()
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Transform the precision matrix to partial correlation matrix |
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PRROC_pr()
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calculate area under precision-recall curve |
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RunJGNsc()
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RunJGNsc framework main function |
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stars.select()
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Tuning parameter selection in JGL by StARS |
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trunc_precision()
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truncate the (precision) matrix |