| #------------------------------------------------------------- |
| # |
| # Licensed to the Apache Software Foundation (ASF) under one |
| # or more contributor license agreements. See the NOTICE file |
| # distributed with this work for additional information |
| # regarding copyright ownership. The ASF licenses this file |
| # to you under the Apache License, Version 2.0 (the |
| # "License"); you may not use this file except in compliance |
| # with the License. You may obtain a copy of the License at |
| # |
| # http://www.apache.org/licenses/LICENSE-2.0 |
| # |
| # Unless required by applicable law or agreed to in writing, |
| # software distributed under the License is distributed on an |
| # "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY |
| # KIND, either express or implied. See the License for the |
| # specific language governing permissions and limitations |
| # under the License. |
| # |
| #------------------------------------------------------------- |
| |
| m_scale = function(Matrix[Double] X, Boolean center, Boolean scale) return (Matrix[Double] Y) { |
| # This function centers scales and performs z-score on the input matrix X |
| |
| if( center ) |
| X = X - colMeans(X); |
| |
| if (scale) { |
| N = nrow(X); |
| if( center ) |
| cvars = (colSums(X^2) - N*(colMeans(X)^2))/(N-1); |
| else |
| cvars = colSums(X^2)/(N-1); |
| |
| #scale by std-dev and replace NaNs with 0's |
| X = replace(target=X/sqrt(cvars), |
| pattern=NaN, replacement=0); |
| } |
| Y = X; |
| } |