Cargando…

The Mega2R package: R tools for accessing and processing genetic data in common formats

The standalone C++ Mega2 program has been facilitating data-reformatting for linkage and association analysis programs since 2000. Support for more analysis programs has been added over time. Currently, Mega2 converts data from several different genetic data formats (including PLINK, VCF, BCF, and I...

Descripción completa

Detalles Bibliográficos
Autores principales:	Baron, Robert V., Stickel, Justin R., Weeks, Daniel E.
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	F1000 Research Limited 2019
Materias:	Software Tool Article
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6137409/ https://www.ncbi.nlm.nih.gov/pubmed/30271589 http://dx.doi.org/10.12688/f1000research.15949.2

Ejemplares similares

haploR: an R package for querying web-based annotation tools
por: Zhbannikov, Ilya Y., et al.
Publicado: (2017)

EvolQG - An R package for evolutionary quantitative genetics
por: Melo, Diogo, et al.
Publicado: (2016)

Feature selection with the R package MXM
por: Tsagris, Michail, et al.
Publicado: (2019)

MegaR: an interactive R package for rapid sample classification and phenotype prediction using metagenome profiles and machine learning
por: Dhungel, Eliza, et al.
Publicado: (2021)

GOsummaries: an R Package for Visual Functional Annotation of Experimental Data
por: Kolde, Raivo, et al.
Publicado: (2015)

DataPackageR: Reproducible data preprocessing, standardization and sharing using R/Bioconductor for collaborative data analysis
por: Finak, Greg, et al.
Publicado: (2018)

Taxa: An R package implementing data standards and methods for taxonomic data
por: Foster, Zachary S.L., et al.
Publicado: (2018)

parazitCUB: An R package to streamline the process of investigating the adaptations of parasites' codon usage bias
por: Anwar, Ali Mostafa, et al.
Publicado: (2023)

Cyrface: An interface from Cytoscape to R that provides a user interface to R packages
por: Gonçalves, Emanuel, et al.
Publicado: (2014)

exampletestr—An easy start to unit testing R packages
por: Nolan, Rory, et al.
Publicado: (2017)

ddpcr: an R package and web application for analysis of droplet digital PCR data
por: Attali, Dean, et al.
Publicado: (2016)

exprso: an R-package for the rapid implementation of machine learning algorithms
por: Quinn, Thomas, et al.
Publicado: (2017)

Epidemic curves made easy using the R package incidence
por: Kamvar, Zhian N., et al.
Publicado: (2019)

lcsm: An R package and tutorial on latent change score modelling
por: Wiedemann, Milan, et al.
Publicado: (2022)

ediblecity: an R package to model and estimate the benefits of urban agriculture
por: Pueyo-Ros, Josep, et al.
Publicado: (2023)

IncucyteDRC: An R package for the dose response analysis of live cell imaging data
por: Chapman, Philip J., et al.
Publicado: (2016)

epiflows: an R package for risk assessment of travel-related spread of disease
por: Moraga, Paula, et al.
Publicado: (2019)

skater: an R package for SNP-based kinship analysis, testing, and evaluation
por: Turner, Stephen D., et al.
Publicado: (2022)

gganatogram: An R package for modular visualisation of anatograms and tissues based on ggplot2
por: Maag, Jesper L.V.
Publicado: (2018)

clustifyr: an R package for automated single-cell RNA sequencing cluster classification
por: Fu, Rui, et al.
Publicado: (2020)

periodicDNA: an R/Bioconductor package to investigate k-mer periodicity in DNA
por: Serizay, Jacques, et al.
Publicado: (2021)

ggroups: an R package for pedigree and genetic groups data
por: Nilforooshan, Mohammad Ali, et al.
Publicado: (2020)

Mega2: validated data-reformatting for linkage and association analyses
por: Baron, Robert V, et al.
Publicado: (2014)

ranacapa: An R package and Shiny web app to explore environmental DNA data with exploratory statistics and interactive visualizations
por: Kandlikar, Gaurav S., et al.
Publicado: (2018)

drawProteins: a Bioconductor/R package for reproducible and programmatic generation of protein schematics
por: Brennan, Paul
Publicado: (2018)

stpm: an R package for stochastic process model
por: Zhbannikov, Ilya Y., et al.
Publicado: (2017)

designGG: an R-package and web tool for the optimal design of genetical genomics experiments
por: Li, Yang, et al.
Publicado: (2009)

MendelianRandomization v0.5.0: updates to an R package for performing Mendelian randomization analyses using summarized data
por: Broadbent, Jim R., et al.
Publicado: (2020)

MendelianRandomization v0.9.0: updates to an R package for performing Mendelian randomization analyses using summarized data
por: Patel, Ashish, et al.
Publicado: (2023)

Expanding the Orthologous Matrix (OMA) programmatic interfaces: REST API and the OmaDB packages for R and Python
por: Kaleb, Klara, et al.
Publicado: (2019)

Transcript annotation tool (TransAT): an R package for retrieving annotations for transcript-specific genetic variants
por: Shih, Ching-Yu, et al.
Publicado: (2021)

edgeR: a versatile tool for the analysis of shRNA-seq and CRISPR-Cas9 genetic screens
por: Dai, Zhiyin, et al.
Publicado: (2014)

DepthTools: an R package for a robust analysis of gene expression data
por: Torrente, Aurora, et al.
Publicado: (2013)

FALCON: a software package for analysis of nestedness in bipartite networks
por: Beckett, Stephen J., et al.
Publicado: (2014)

BiocPkgTools: Toolkit for mining the Bioconductor package ecosystem
por: Su, Shian, et al.
Publicado: (2019)

BgeeDB, an R package for retrieval of curated expression datasets and for gene list expression localization enrichment tests
por: Komljenovic, Andrea, et al.
Publicado: (2018)

whoishRisk – an R package to calculate WHO/ISH cardiovascular risk scores for all epidemiological subregions of the world
por: Collins, Dylan, et al.
Publicado: (2017)

gprofiler2 -- an R package for gene list functional enrichment analysis and namespace conversion toolset g:Profiler
por: Kolberg, Liis, et al.
Publicado: (2020)

wtest: an integrated R package for genetic epistasis testing
por: Sun, Rui, et al.
Publicado: (2019)

dendsort: modular leaf ordering methods for dendrogram representations in R
por: Sakai, Ryo, et al.
Publicado: (2014)

Cannot write session to /tmp/vufind_sessions/sess_re0fmcbv4pdk9rha8np5o2ipl3