add runChromVAR and predictGenePeakPair.Rd

mief · Sep 19, 2019 · f84c604 · f84c604
1 parent 451db32
commit f84c604
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Showing 5 changed files with 8 additions and 13 deletions.
diff --git a/R/predictGenePeakPair.R b/R/predictGenePeakPair.R
@@ -14,11 +14,7 @@
 #' @importFrom plyr llply
 #' 
 #' @export
-predictGenePeakPair<- function(obj, input.mat, gene.name, gene.loci, do.par, num.cores){
-  UseMethod("predictGenePeakPair", obj);
-}
-
-predictGenePeakPair.default <- function(
+predictGenePeakPair <- function(
 	obj, 
 	input.mat=c("pmat", "bmat"),
 	gene.name=NULL,

diff --git a/R/runChromVAR.R b/R/runChromVAR.R
@@ -8,11 +8,7 @@
 #' @return Return a matrix object that contains the cell-by-motif matrix
 #'
 #' @export
-runChromVAR<- function(obj, input.mat, genome, min.count, species){
-  UseMethod("runChromVAR", obj);
-}
-
-runChromVAR.default <- function(
+runChromVAR <- function(
 	obj, 
 	input.mat=c("pmat", "bmat"),
 	genome=BSgenome.Hsapiens.UCSC.hg19,

diff --git a/README.md b/README.md
@@ -1,4 +1,4 @@
-## SnapATAC (Development)
+## SnapATAC (Latest Updates: 2019-09-19)
 **SnapATAC** (**S**ingle **N**ucleus **A**nalysis **P**ipeline for **ATAC**-seq) is a fast, accurate and comprehensive method for analyzing single cell ATAC-seq datasets. 
 
 ## Latest News

diff --git a/man/predictGenePeakPair.Rd b/man/predictGenePeakPair.Rd
diff --git a/man/runChromVAR.Rd b/man/runChromVAR.Rd