Package: mirTarRnaSeq 1.21.0

Introduction | Data upload | mirTarRnaSeq accepts data in dataframe or table formats | Part1 - miRNA mRNA regressions across sample cohorts | Uploading data into the application. The example data can be found in the test folder under package. | Get miRanda file | Select miRNA | Combine the mRNA and miRNA file and define boundaries ans specify which mRNA and miRNA files in the combined file. | Run a one to one miRNA/mRNA gaussian regression model (univariate model for 1 miRNA and 1 mRNA). | Running Gaussian model over all individual miRNA mRNA models (univatiate model for every mRNA and miRNA relationship across the input dataset with Gaussian distribution assumptions) | Running poisson model over all individual miRNA mRNA models (univatiate model for every mRNA and miRNA relationship across the input dataset with poisson distribution assumptions) | Running negative binomial model over all individual miRNA mRNA models (univatiate model for every mRNA and miRNA relationship across the input dataset with negative bionomial distribution assumptions). | Running zero inflated negative binomial model over all individual miRNA mRNA models (univatiate model for every mRNA and miRNA relationship across the input dataset with zero inflated negative bionomial distribution assumptions). | Running zero inflated poisson binomial model over all individual miRNA mRNA models (univatiate model for every mRNA and miRNA relationship across the input dataset with zero inflated poisson distribution assumptions). | Including Plots for all models to decide which to use | The user can decide to use runModels() with glm_multi() (with multi and inter mode options) | GLM multi and GLM inter | Running all miRNA and mRNA combinations at the same time | One2manySponge | Part2 - Identify miRNA mRNA correlations across 3 or more time points | Get mRNAs | Get mRNAs with particular fold change | Get all miRNAs | Get mRNA miRNA correlation | Make a background distribution correlation | Plot density plots | Get correlations below threshold | Get mouse miRanda data | mRNA miRNA correlation heatmap | Get intersection of miRanda | Part3 - Identify significant miRNA mRNA relationships for 2 time points | Import data | Only look for time point difference 0-5 | Get fold changes above thereshold | Estimate miRNA mRNA differences based on Fold Change | Make background distribution | miRanda data import | Identify relationships below threshold | miRanda intersection with results | Make dataframe and plots | mRNA miRNA heatmap of miRNA mRNA FC differences