dannyarends / gnapi Goto Github PK

You can install R/GNapi from GitHub.

You first need to install the devtools.

install.packages("devtools")

Then use devtools::install_github() to install R/GNapi.

library(devtools)
install_github("kbroman/GNapi")

For an understanding of the the GeneNetwork API, see its tutorial.

The R/GNapi package has a set of functions for connecting to the GeneNetwork API to grab different bits of information or data.

• check_gn() - Check connection and get current version number.
• list_species() - List available species.
• list_datasets("BXD") - List available datasets for a given cross (here, "BXD").
• info_dataset("CB_M_1004_P") - Get meta information about a data set.
• get_pheno("10646") - Get phenotype values for a classical trait.
• list_probesets("CB_M_1004_P", 100, 101) - List a slice of probesets for gene expression microarray type phenotypes.
• get_probeset("CB_M_1004_P", "1445618_at_B") - Get phenotype values for a given probeset in a given dataset.
• info_geno("BXD") - Get meta information for the genotypes for a given cross.
• get_geno("BXD") - Get genotype data for a given cross.
• get_gmap("BXD") - Get genetic (and physical) marker maps for a given cross.

R/GNapi is released under the MIT license.