R package citation, R package reverse dependencies, R package scholars, install an r package from GitHub hy is package acceptance pending why is package undeliverable amazon why is package on hold dhl tour packages why in r package r and r package full form why is r free why r is bad which r package to install which r package has which r package which r package version which r package readxl which r package ggplot which r package fread which r package license where is package.json where is package-lock.json where is package.swift where is package explorer in eclipse where is package where is package manager unity where is package installer android where is package manager console in visual studio who r package which r package to install which r package version who is package who is package deal who is package design r and r package full form r and r package meaning what r package has what package r what is package in java what is package what is package-lock.json what is package in python what is package.json what is package installer do r package can't install r packages r can't find package r can't load package can't load xlsx package r can't install psych package r can't install sf package r Write if else in NONMEM pk pd
SNPfiltR
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", "1.0.1")
Attach the package and use:
library("SNPfiltR")
Maintained by
Devon DeRaad
[Scholar Profile | Author Map]
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2021-10-28
Latest Update: 2023-03-17
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 1.0.1, https://cran.r-project.org/web/packages/SNPfiltR. Accessed 08 Mar. 2025.
Previous versions and publish date:
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
Functions, R codes and Examples using
the SNPfiltR R package
Some associated functions: SNPfiltR . assess_missing_data_pca . assess_missing_data_tsne . distance_thin . filter_allele_balance . filter_biallelic . hard_filter . max_depth . min_mac . missing_by_sample . missing_by_snp . popmap . vcfR.example .
Some associated R codes: SNPfiltR.R . assess_missing_data_pca.R . assess_missing_data_tsne.R . distance_thin.R . example_data.R . filter_allele_balance.R . filter_biallelic.R . hard_filter.R . max_depth.R . min_mac.R . missing_by_sample.R . missing_by_snp.R . zzz.R . Full SNPfiltR package functions and examples
Downloads during the last 30 days
Today's Hot Picks in Authors and Packages
varbin
Tool for easy and efficient discretization of continuous and categorical data. The package calculat ...
Download / Learn more Package Citations See dependency
Download / Learn more Package Citations See dependency
Maintainer: Daniel Safai (view profile)
billboard
Contains data sets regarding songs on the Billboard Hot 100 list
from 1960 to 2016. The data sets i ...
Download / Learn more Package Citations See dependency
Download / Learn more Package Citations See dependency
Maintainer: Mikkel Freltoft Krogsholm (view profile)
batchscr
Handy frameworks, such as error handling and log generation, for batch scripts.
Use case: in script ...
Download / Learn more Package Citations See dependency
Download / Learn more Package Citations See dependency
Maintainer: Sherry Zhao (view profile)
nextGenShinyApps
Nove responsive tools for designing and developing 'Shiny' dashboards and applications. The scripts ...
Download / Learn more Package Citations See dependency
Download / Learn more Package Citations See dependency
Maintainer: Obinna Obianom (view profile)
kdist
Density, distribution function, quantile function and random generation
for the K-distribution. A p ...
Download / Learn more Package Citations See dependency
Download / Learn more Package Citations See dependency
Maintainer: Tim Lamont-Smith (view profile)
gtheory
Estimates variance components, generalizability coefficients,
universe scores, and standard errors ...
Download / Learn more Package Citations See dependency
Download / Learn more Package Citations See dependency
Maintainer: Christopher T. Moore (view profile)
23,794
R Packages
206,711
Dependencies
64,305
Author Associations
23,781
Publication Badges
