FnPCA                   Creating PCA plots with logit(fn) estimates
Heatmap_kdeg            Creating a L2FC(kdeg) matrix that can be passed
                        to heatmap functions
NSSHeat                 Construct heatmap for non-steady state (NSS)
                        analysis
NSSHeat2                Construct heatmap for non-steady state (NSS)
                        analysis with improved mechanism score
QC_checks               Check data quality and make suggestions to user
                        about what analyses to run.
Simulate_bakRData       Simulating nucleotide recoding data
TL_stan                 Fit 'Stan' models to nucleotide recoding
                        RNA-seq data analysis
bakR-package            The 'bakR' package.
bakRData                bakR Data object helper function for users
bakRFit                 Estimating kinetic parameters from nucleotide
                        recoding RNA-seq data
cB_small                Example cB data frame
cBprocess               Curate data in bakRData object for statistical
                        modeling
fast_analysis           Efficiently analyze nucleotide recoding data
metadf                  Example meatdf data frame
new_bakRData            bakRData object constructor for internal use
plotMA                  Creating L2FC(kdeg) MA plot from fit objects
plotVolcano             Creating L2FC(kdeg) volcano plot from fit
                        objects
reliableFeatures        Identify features (e.g., transcripts) with high
                        quality data
validate_bakRData       bakR Data object validator
