From f702c5622eb3d1305a7b0ad153284bebc3de0af8 Mon Sep 17 00:00:00 2001 From: Don Armstrong Date: Fri, 7 Apr 2017 14:09:22 -0500 Subject: [PATCH] document loess and mva.plot.pair --- man/loess_normalization.Rd | 6 +++--- man/mva.plot.pair.Rd | 2 +- 2 files changed, 4 insertions(+), 4 deletions(-) diff --git a/man/loess_normalization.Rd b/man/loess_normalization.Rd index 20a93ca..b7e5c3d 100644 --- a/man/loess_normalization.Rd +++ b/man/loess_normalization.Rd @@ -5,8 +5,8 @@ \title{loess_normalization} \usage{ loess_normalization(expressions, iterations = 2, small.positive = 0.1, - sample.size = 200, num.cores = max(floor(detectCores()/2), 1), - normalization.method = "mean") + sample.size = 200, num.cores = max(floor(parallel::detectCores()/2), 1), + imputation.method = "mean", offset = 0) } \arguments{ \item{expressions}{Gene expression values with probes in rows and samples in columns} @@ -19,7 +19,7 @@ loess_normalization(expressions, iterations = 2, small.positive = 0.1, \item{num.cores}{Number of cores to use (Default: half of them)} -\item{noramlization.method}{Normalization method (Default: mean).} +\item{imputation.method}{Method to impute missing values. String of "mean" (missing values are the mean of the row) or "knn" (use impute.knn to impute missing values) (Default: "mean").} } \value{ data.frame of normalized expression values diff --git a/man/mva.plot.pair.Rd b/man/mva.plot.pair.Rd index 3a47edc..9ef6f1f 100644 --- a/man/mva.plot.pair.Rd +++ b/man/mva.plot.pair.Rd @@ -4,7 +4,7 @@ \alias{mva.plot.pair} \title{mva.plot.pair} \usage{ -mva.plot.pair(array, title = F, small.positive = 0.1) +mva.plot.pair(array, title = FALSE, small.positive = 0.1) } \arguments{ \item{array}{Array of data to plot} -- 2.39.2