Other packages > Find by keyword >

SNPfiltR  

Interactively Filter SNP Datasets
View on CRAN: Click here


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

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

Install by package version:
library("remotes")
install_version("SNPfiltR", "1.0.7")



Attach the package and use:
library("SNPfiltR")
Maintained by
Devon DeRaad
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2021-10-28
Latest Update:
Description:
Is designed to interactively and reproducibly visualize and filter SNP (single-nucleotide polymorphism) datasets. This R-based implementation of SNP and genotype filters facilitates an interactive and iterative SNP filtering pipeline, which can be documented reproducibly via Rmarkdown. 'SNPfiltR' contains functions for visualizing various quality and missing data metrics for a SNP dataset, and then filtering the dataset based on user specified cutoffs. All functions take 'vcfR' objects as input, which can easily be generated by reading standard vcf (variant call format) files into R using the R package 'vcfR' (Knaus and Grünwald) (<doi:10.1111/1755-0998.12549>). Each 'SNPfiltR' function can return a newly filtered vcfR object, which can then be written to a local directory in standard vcf format using the 'vcfR' package, for downstream population genetic and phylogenetic analyses.
How to cite:
Devon DeRaad (2021). SNPfiltR: Interactively Filter SNP Datasets. R package version 1.0.7, https://cran.r-project.org/web/packages/SNPfiltR. Accessed 04 Jun. 2026.
Previous versions and publish date:
0.1.0 (2021-10-28 20:50), 0.1.1 (2022-01-25 13:02), 1.0.0 (2022-04-16 02:32), 1.0.1 (2023-03-17 17:40)
Other packages that cited SNPfiltR R package
View SNPfiltR citation profile
Other R packages that SNPfiltR depends, imports, suggests or enhances
Complete documentation for SNPfiltR
Downloads during the last 30 days

Today's Hot Picks in Authors and Packages

golem  
A Framework for Robust Shiny Applications
An opinionated framework for building a production-ready 'Shiny' application. This package contains ...
Download / Learn more Package Citations See dependency  
AMPLE  
Shiny Apps to Support Capacity Building on Harvest Control Rules
Three Shiny apps are provided that introduce Harvest Control Rules (HCR) for fisheries management. ...
Download / Learn more Package Citations See dependency  
murphydiagram  
Murphy Diagrams for Forecast Comparisons
Data and code for the paper by Ehm, Gneiting, Jordan and Krueger ('Of Quantiles and Expectiles: Con ...
Download / Learn more Package Citations See dependency  
phers  
Calculate Phenotype Risk Scores
Use phenotype risk scores based on linked clinical and genetic data to study Mendelian disease and ...
Download / Learn more Package Citations See dependency  
shinybusy  
Busy Indicators and Notifications for 'Shiny' Applications
Add indicators (spinner, progress bar, gif) in your 'shiny' applications to show the user that the ...
Download / Learn more Package Citations See dependency  
crplyr  
A 'dplyr' Interface for Crunch
In order to facilitate analysis of datasets hosted on the Crunch data platform ...
Download / Learn more Package Citations See dependency  

27,268

R Packages

233,548

Dependencies

72,590

Author Associations

27,205

Publication Badges

© Copyright since 2022. All right reserved, rpkg.net.  Based in Cambridge, Massachusetts, USA