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variantspark  

A 'Sparklyr' Extension for 'VariantSpark'
View on CRAN: Click here


Download and install variantspark package within the R console
Install from CRAN:
install.packages("variantspark")

Install from Github:
library("remotes")
install_github("cran/variantspark")

Install by package version:
library("remotes")
install_version("variantspark", "0.1.1")



Attach the package and use:
library("variantspark")
Maintained by
Samuel Macêdo
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2019-06-13
Latest Update: 2019-06-13
Description:
This is a 'sparklyr' extension integrating 'VariantSpark' and R. 'VariantSpark' is a framework based on 'scala' and 'spark' to analyze genome datasets, see <https://bioinformatics.csiro.au/>. It was tested on datasets with 3000 samples each one containing 80 million features in either unsupervised clustering approaches and supervised applications, like classification and regression. The genome datasets are usually writing in VCF, a specific text file format used in bioinformatics for storing gene sequence variations. So, 'VariantSpark' is a great tool for genome research, because it is able to read VCF files, run analyses and return the output in a 'spark' data frame.
How to cite:
Samuel Macêdo (2019). variantspark: A 'Sparklyr' Extension for 'VariantSpark'. R package version 0.1.1, https://cran.r-project.org/web/packages/variantspark. Accessed 07 Nov. 2024.
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