--- a
+++ b/man/shaPRS_blend_overlap.Rd
@@ -0,0 +1,42 @@
+% Generated by roxygen2: do not edit by hand
+% Please edit documentation in R/shaPRS.R
+\name{shaPRS_blend_overlap}
+\alias{shaPRS_blend_overlap}
+\title{Blended shaPRS (with overlapping datasets): produce summary statistics according to a continuous weighting scheme}
+\usage{
+shaPRS_blend_overlap(
+  proximal,
+  adjunct,
+  blendingFactors,
+  rho = 0,
+  discardAmbiguousSNPs = T
+)
+}
+\arguments{
+\item{proximal}{Proximal LDPred formatted GWAS summary statistics table  that has header with the following columns: chr    pos    SNP    A1    A2    Freq1.Hapmap    b    se    p    N}
+
+\item{adjunct}{dataframe for adjunct dataset of the same signature}
+
+\item{blendingFactors}{a 3 column table of: SNP lFDR Qval, (produced by shaPRS_adjust)}
+
+\item{rho}{(optional) sample overlap between studies}
+
+\item{discardAmbiguousSNPs}{(optional) if ambiguous SNPs (G/C and A/T) should be discarded (default TRUE)}
+}
+\value{
+returns an LDPred formatted summary statistics table
+}
+\description{
+This function continuously blends the two sub-phenotype statistics
+and generates an LDPred formatted table.
+}
+\examples{
+proximalLoc <- system.file("extdata", "phenoA_sumstats", package = "shaPRS")
+adjunctLoc <- system.file("extdata", "phenoB_sumstats", package = "shaPRS")
+blendFactorLoc <- system.file("extdata", "myOutput_SNP_lFDR", package = "shaPRS")
+proximal= read.table(proximalLoc, header = TRUE)
+adjunct= read.table(adjunctLoc, header = TRUE)
+blendingFactors= read.table(blendFactorLoc, header = TRUE)
+blendedSumstats = shaPRS_blend_overlap(proximal, adjunct, blendingFactors)
+
+}