NAMESPACE

exportPattern("^[[:alpha:]]+")
import(Rcpp, STAAR, MultiSTAAR, STAARpipeline, SCANG, dplyr, SeqArray, TxDb.Hsapiens.UCSC.hg38.knownGene, GMMAT, Matrix, methods, lattice)
importFrom("stats", "pchisq", "lm", "model.matrix", "quantile", "rnorm", "binomial")
importFrom("SeqVarTools", "isSNV")
importFrom("GenomicFeatures", "genes", "promoters")
importFrom("grDevices", "dev.off", "png")
importFrom("graphics", "abline", "legend", "par", "plot")
importFrom("utils", "modifyList", "write.csv")


# functions
export(Annotate_Single_Variants,
       Dynamic_Window_Results_Summary,
       Individual_Analysis_Results_Summary,
       Gene_Centric_Coding_Results_Summary,
       Gene_Centric_Coding_Results_Summary_incl_ptv,
       Gene_Centric_Noncoding_Results_Summary,
       Sliding_Window_Results_Summary,
       Gene_Centric_Coding_Info,
       Gene_Centric_Noncoding_Info,
       Single_Variants_List_Analysis,
       Sliding_Window_Info,
       Single_Variants_List_Analysis,
       fit_nullmodel_genome_cond_spa)