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
MixviR
View on CRAN: Click
here
Download and install MixviR package within the R console
Install from CRAN:
install.packages("MixviR")
Install from Github:
library("remotes")
install_github("cran/MixviR")
Install by package version:
library("remotes")
install_version("MixviR", "3.5.0")
Attach the package and use:
library("MixviR")
Maintained by
Michael Sovic
[Scholar Profile | Author Map]
[Scholar Profile | Author Map]
All associated links for this package
10.32614/CRAN.package.MixviR . https://github.com/mikesovic/MixviR . MixviR results . MixviR.pdf . MixviR_v3.5.0 . MixviR_3.5.0.tar.gz . MixviR_3.5.0.zip . MixviR_3.5.0.zip . MixviR_3.5.0.zip . MixviR_3.5.0.tgz . MixviR_3.5.0.tgz . MixviR_3.5.0.tgz . MixviR_3.5.0.tgz . MixviR_3.5.0.tgz . MixviR_3.5.0.tgz . MixviR archive . https://CRAN.R-project.org/package=MixviR .
First Published: 2022-05-04
Latest Update: 2022-10-22
Description:
Tool for exploring DNA and amino acid variation and inferring the presence of target lineages from microbial high-throughput genomic DNA samples that potentially contain mixtures of variants/lineages. MixviR was originally created to help analyze environmental SARS-CoV-2/Covid-19 samples from environmental sources such as wastewater or dust, but can be applied to any microbial group. Inputs include reference genome information in commonly-used file formats (fasta, bed) and one or more variant call format (VCF) files, which can be generated with programs such as Illumina's DRAGEN, the Genome Analysis Toolkit, or bcftools. See DePristo et al (2011) and Danecek et al (2021) for these tools, respectively. Available outputs include a table of mutations observed in the sample(s), estimates of proportions of target lineages in the sample(s), and an R Shiny dashboard to interactively explore the data.
How to cite:
Michael Sovic (2022). MixviR: Analysis and Exploration of Mixed Microbial Genomic Samples. R package version 3.5.0, https://cran.r-project.org/web/packages/MixviR. Accessed 29 Mar. 2025.
Previous versions and publish date:
3.3.5 (2022-05-04 09:20)
Other packages that cited MixviR R package
View MixviR citation profile
Other R packages that MixviR depends,
imports, suggests or enhances
Complete documentation for MixviR
Functions, R codes and Examples using
the MixviR R package
Some associated functions: add_depths_to_ref . call_mutations . create_ref . estimate_lineages . explore_mutations . get_codons . id_indels . id_snps . vcf_to_mixvir .
Some associated R codes: RGlobals.R . app.R . create_ref.R . estimate_lineages.R . get_codons.R . id_mutations.R . Full MixviR package functions and examples
Downloads during the last 30 days
Today's Hot Picks in Authors and Packages
quickcode
The NOT functions, 'R' tricks and a compilation of some simple quick plus often used 'R' codes to im ...
Download / Learn more Package Citations See dependency
Download / Learn more Package Citations See dependency
Maintainer: Obinna Obianom (view profile)
landmix
Non-parametric prediction of survival outcomes for mixture data that incorporates covariates and a l ...
Download / Learn more Package Citations See dependency
Download / Learn more Package Citations See dependency
Maintainer: Layla Parast (view profile)
gglgbtq
Provides multiple palettes based on pride flags with tailored themes. ...
Download / Learn more Package Citations See dependency
Download / Learn more Package Citations See dependency
Maintainer: Laura Bakala (view profile)
23,842
R Packages
207,311
Dependencies
64,420
Author Associations
23,781
Publication Badges
