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pagoo  

Analyze Bacterial Pangenomes in R with 'Pagoo'
View on CRAN: Click here


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

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

Install by package version:
library("remotes")
install_version("pagoo", "0.3.17")



Attach the package and use:
library("pagoo")
Maintained by
Ignacio Ferres
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2021-02-12
Latest Update: 2022-11-18
Description:
Provides an encapsulated, object-oriented class system for analyzing bacterial pangenomes. For a definition of this concept, see Tettelin, et al. (2005) . It uses the R6 package as backend. It was designed in order to facilitate and speed-up the comparative analysis of multiple bacterial genomes, standardizing and optimizing routine tasks performed everyday. There are a handful of things done everyday when working with bacterial pangenomes: subset, summarize, extract, visualize and store data. So, 'pagoo' is intended to facilitate these tasks as much as possible. For a description of the implemented data structure and methods, see Ferres & Iraola (2020), .
How to cite:
Ignacio Ferres (2021). pagoo: Analyze Bacterial Pangenomes in R with 'Pagoo'. R package version 0.3.17, https://cran.r-project.org/web/packages/pagoo. Accessed 21 Nov. 2024.
Previous versions and publish date:
0.3.8 (2021-02-12 10:50), 0.3.9 (2021-05-13 17:00), 0.3.12 (2022-02-01 09:10), 0.3.13 (2022-08-31 21:50), 0.3.17 (2022-11-18 19:50)
Other packages that cited pagoo R package
View pagoo citation profile
Other R packages that pagoo depends, imports, suggests or enhances
Functions, R codes and Examples using the pagoo R package
Some associated functions: PgR6 . PgR6M . PgR6MS . load_pangenomeRDS . pagoo . panaroo_2_pagoo . roary_2_pagoo . 
Some associated R codes: PgR6.R . PgR6M.R . PgR6MS.R . active_subset_methods.R . panaroo_2_pagoo.R . panx_2_pagoo.R . read_functions.R . roary_2_pagoo.R .  Full pagoo package functions and examples
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