Nearest-neighbor Projected Distance Regression - Optimized (npdro). npdro extends ndpr feature selection by optimizing neighborhoods and the number of neighbors to detect main effects and interactions in high-dimensional datasets. Neighbor optimization methods include consensus nested cross-validation (cncv) with classification, varible-wise optimized-k (vwok), and principal component optimized-k (kPCA). npdro also includes optional speed optimizations.
2020 NDPR paper in Bioinformatics
2013 Gene-Wise Adaptive-Neighbors paper in PLoS One
>library(devtools)
>install_github("insilico/npdro")
>library(npdro)
To install the tidyverse collection of R packages:
install.packages('tidyverse')
To set fast.reg = TRUE or fast.dist = TRUE or use.glmnet = TRUE, please install the speedglm and glmnet packages:
install.packages(c('speedglm', 'wordspace', 'glmnet'))
If an issue arises with updating openssl, try updating it on your own system, e.g. for MacOS:
brew install [email protected]