RPackage
RPackage
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valr: Reproducible genome interval analysis in R
[version 1; peer review: 2 approved]
Peer Reviewers
Invited
- Funders
- U.S. National Library of Medicine
- National Institutes of Health
- Colorado Office of Economic Development and International Trade
- BioFrontiers Institute, University of Colorado Boulder
- University of Colorado
Software Tool Article
metrics
Revised
Using the R Package, nsink, to assess landscape N removal in coastal catchments
[version 2; peer review: 2 approved]
Peer Reviewers
Jianning Ren;
Lora Harris
- Funder
- U.S. Environmental Protection Agency
Software Tool Article
metrics
SCUBA implements a storage format-agnostic API for single-cell data access in R
[version 1; peer review: 1 approved, 1 approved with reservations, 1 not approved]
Peer Reviewers
Huamei Li;
Kristian Ullrich;
Damian Panas and Marcin Tabaka
- Funders
- National Institutes of Health
- U.S. Department of Veterans Affairs
Software Tool Article
metrics
Revised
{MFPP(R). An R package for matrix-based flexible project planning
[version 2; peer review: 2 approved with reservations, 1 not approved]
Peer Reviewers
Shan Jayasinghe;
Ágoston Kolos;
Bálint Blaskovics
- Funder
- Ministry of Culture and Innovation of Hungary from the National Research, Development and Innovation Fund
Software Tool Article
metrics
Revised
UKB.COVID19: an R package for UK Biobank COVID-19 data processing and analysis
[version 3; peer review: 2 approved, 1 not approved]
Peer Reviewers
Thomas Michael Palmer;
Virginia Valeria and Annalisa De Silvestri;
Edgar Gonzalez-Kozlova
- Funder
- Australian Government National Health and Medical Research Council (NHMRC)
Software Tool Article
metrics
Revised
GARCOM: A user-friendly R package for genetic mutation counts
[version 2; peer review: 2 approved, 1 approved with reservations]
Peer Reviewers
Ettore Mosca;
Stephen M. Pederson;
Tao Wang
- Funder
- National Institute of Aging
Software Tool Article
metrics
Revised
BASiCS workflow: a step-by-step analysis of expression variability using single cell RNA sequencing data
[version 2; peer review: 1 approved, 2 approved with reservations]
Peer Reviewers
Oliver M. Crook;
Andrew McDavid;
Michel S Naslavsky
- Funders
- Cancer Research UK
- University of Edinburgh
- European Molecular Biology Laboratory
Software Tool Article
metrics
Revised
CircSeqAlignTk: An R package for end-to-end analysis of RNA-seq data for circular genomes
[version 2; peer review: 1 approved, 2 approved with reservations]
Peer Reviewers
Eric Soler and Mohammad Salma;
Xueyi Dong;
Alexander Zelikovsky and Bikram Sahoo
- Funder
- Japan Society for the Promotion of Science
Software Tool Article
metrics
parazitCUB: An R package to streamline the process of investigating the adaptations of parasites' codon usage bias
[version 1; peer review: 2 approved]
Peer Reviewers
Ahmed Abdelmonem Hemedan;
Xianzhao Kan
Software Tool Article
metrics
Revised
multiomics: A user-friendly multi-omics data harmonisation R pipeline
[version 2; peer review: 1 approved, 4 not approved]
Peer Reviewers
Javad Zahiri;
Arjun Krishnan;
Giri Narasimhan and Parshatd Govindasamy;
Junyi Chen;
Prashanth Suravajhala
- Funders
- Australian Women Research Success Grant - Monash University
- Monash Faculty of Science Dean’s Postgraduate Research Scholarship - Monash University
- Australian Government Research Training Program Scholarship
- National Health and Medical Research Council
- Australia-India Strategic Research Fund Early- and Mid-Career Researcher Fellowship
Software Tool Article
metrics
Revised
ngsJulia: population genetic analysis of next-generation DNA sequencing data with Julia language
[version 3; peer review: 1 approved, 3 approved with reservations]
Peer Reviewers
Lindsay Clark;
Stéphane De Mita;
Nikolay Oskolkov;
Jens Léon and Michael Schneider
- Funder
- The Leverhulme Trust
Software Tool Article
metrics
Revised
DEVEA: an interactive shiny application for Differential Expression analysis, data Visualization and Enrichment Analysis of transcriptomics data
[version 2; peer review: 2 approved]
Peer Reviewers
Hélène Hirbec;
Wenbin Guo
- Funder
- PhD fellowship from the CEA (Amont-Aval).
Software Tool Article
metrics
AmpSeqR: an R package for amplicon deep sequencing data analysis
[version 1; peer review: 1 approved, 2 approved with reservations]
Peer Reviewers
Eduardo Castro-Nallar;
Cristian Koepfli and Gustavo Da Silva;
Patrick Murigu Kamau Njage
- Funders
- National Health and Medical Research Council
- Institute Infrastructure Support Scheme (IRIISS)
Software Tool Article
metrics
abmAnimalMovement: An R package for simulating animal movement using an agent-based model
[version 1; peer review: 2 approved with reservations]
Peer Reviewers
Rocío Joo;
Andrea Contina
- Funder
- Natural Environment Research Council
Software Tool Article
metrics
Peccary, a metaprogramming open-source R platform to improve pharmacometrics efficiency
[version 1; peer review: 1 approved, 1 approved with reservations]
Peer Reviewers
Elena Maria Tosca;
Sergio Sánchez-Herrero
- Funder
- Servier
Method Article
metrics
Revised
satuRn: Scalable analysis of differential transcript usage for bulk and single-cell RNA-sequencing applications
[version 2; peer review: 2 approved]
Peer Reviewers
Marek Cmero;
Alejandro Reyes
- Funders
- Belgian American Educational Foundation
- Fonds Wetenschappelijk Onderzoek
Method Article
metrics
Revised
An R-based reproducible and user-friendly preprocessing pipeline for CyTOF data
[version 2; peer review: 2 approved]
Peer Reviewers
Marie Trussart;
Felix Hartmann and Sean C. Bendall
- Funders
- Universitätsspital Basel
- Universitätsspital Zürich
- Roche
- Schweizerischer Nationalfonds zur Förderung der Wissenschaftlichen Forschung
- Universität Zürich
Software Tool Article
metrics
Revised
target: an R package to predict combined function of transcription factors
[version 4; peer review: 1 approved, 1 approved with reservations]
Peer Reviewers
Shulan Tian and Yan Huihuang;
Mireia Ramos-Rodríguez
- Funder
- National Research Foundation of Korea
Software Tool Article
metrics
rspatialdata: a collection of data sources and tutorials on downloading and visualising spatial data using R
[version 1; peer review: 2 approved]
Peer Reviewers
Emmanuel Olamijuwon;
Natalia da Silva
Software Tool Article
metrics
MAFDash: An easy-to-use dashboard builder for mutation data
[version 1; peer review: 2 not approved]
Peer Reviewers
Sigve Nakken;
Heiko Brennenstuhl
- Funder
- National Cancer Institute, National Institutes of Health
Opinion Article
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Peer Reviewers
Sergio Peignier;
Yasha Hasija