cran: rJava | Projects | Ecosyste.ms: Papers

10.3390/metabo9100200

The metaRbolomics Toolbox in Bioconductor and beyond
Cited by: 61
Author(s): Jan Stanstrup, Corey D. Broeckling, Rick Helmus, Nils Hoffmann, Ewy A. Mathé, Thomas Naake, Luca Nicolotti, Kristian Peters, Johannes Michael Rainer, Reza M. Salek, Tobias Schulze, Emma L. Schymanski, Michael A. Stravs, Etienne Thévenot, Hendrik Treutler, Ralf Weber, Egon Willighagen, Michael Witting, Steffen Neumann
Software Mentions: 92
Published: almost 5 years ago

10.3390/biology3010085

R-Based Software for the Integration of Pathway Data into Bioinformatic Algorithms
Cited by: 17
Author(s): Frank Krämer, Michaela Bayerlová, Tim Beißbarth
Software Mentions: 28
Published: over 10 years ago

10.7717/peerj.11177

Predicting migration routes for three species of migratory bats using species distribution models
Cited by: 13
Author(s): Jamin G. Wieringa, Bryan C. Carstens, H. Lisle Gibbs
Software Mentions: 16
Published: over 3 years ago

10.1371/journal.pcbi.1008316

Ten simple rules for writing Dockerfiles for reproducible data science
Cited by: 36
Author(s): Daniel Nüst, Vanessa Sochat, Ben Marwick, Stephen J. Eglen, T. Head, Tony Hirst, Benjamin D. Evans
Software Mentions: 11
Published: almost 4 years ago

10.1186/1471-2105-10-74

RGG: A general GUI Framework for R scripts
Cited by: 7
Author(s): Ilhami Visne, Erkan Dilaveroǧlu, Klemens Vierlinger, Martin Lauss, Ahmet Yıldız, Andreas Weinhäusel, Christa Noehammer, Friedrich Leisch, Albert Kriegner
Software Mentions: 11
Published: over 15 years ago

10.1038/s41598-019-52520-y

Naturally-primed life strategy plasticity of dimorphic Aethionema arabicum facilitates optimal habitat colonization
Cited by: 14
Author(s): Samik Bhattacharya, Katja Sperber, Barış Özüdoğru, Gerhard Leubner‐Metzger, Klaus Mummenhoff
Software Mentions: 10
Published: almost 5 years ago

10.7554/eLife.55993

Combining agent-based, trait-based and demographic approaches to model coral-community dynamics
Cited by: 7
Author(s): Bruno Carturan, Jason Pither, Jean‐Philippe Maréchal, Corey J. A. Bradshaw, Lael Parrott
Software Mentions: 10
Published: about 4 years ago

10.1002/ece3.2100

Phylogenetic assemblage structure of North American trees is more strongly shaped by glacial-interglacial climate variability in gymnosperms than in angiosperms
Cited by: 39
Author(s): Ziyu Ma, Brody Sandel, Jens‐Christian Svenning
Software Mentions: 10
Published: over 8 years ago

10.1038/s41598-017-18927-1

Species Distribution Modelling: Contrasting presence-only models with plot abundance data
Cited by: 107
Author(s): Vitor Hugo Freitas Gomes, Stéphanie D. IJff, Niels Raes, Iêda Leão do Amaral, Rafael de Paiva Salomão, Luiz de Souza Coêlho, Francisca Dionízia de Almeida Matos, Carolina V. Castilho, Diógenes de Andrade Lima Filho, Dairon Cárdenas López, Juan Ernesto Guevara, William E. Magnusson, Oliver L. Phillips, Florian Wittmann, Marcelo de Jesus Veiga Carim, Maria Pires Martins, Mariana Victória Irume, Daniel Sabatier, Jean‐François Molino, Olaf Bánki, José Renan da Silva Guimarães, Nigel C. A. Pitman, Maria Teresa Fernandez Piedade, Abel Monteagudo Mendoza, Bruno Garcia Luize, Eduardo Martins Venticinque, Evlyn Márcia Moraes de Leão Novo, Percy Núñez Vargas, Thiago Sanna Freire Silva, Ângelo Gilberto Manzatto, John Terborgh, Neidiane Farias Costa Reis, Juan Carlos Montero, Katia Regina Casula, Beatriz Schwantes Marimon, Ben‐Hur Marimon, Eurídice N. Honorio Coronado, Ted R. Feldpausch, Álvaro Duque, Charles E. Zartman, Nicolás Castaño Arboleda, Timothy J. Killeen, Bonifacio Mostacedo, Rodolfo Vásquez, Jochen Schöngart, Rafael Leandro de Assis, Marcelo Brilhante de Medeiros, Marcelo F. Simon, Ana Andrade, William F. Laurance, José Luís Camargo, Layon Oreste Demarchi, Susan G. Laurance, Emanuelle de Sousa Farias, Henrique E. M. Nascimento, Juan David Cardenas Revilla, Adriano Costa Quaresma, Flávia R. C. Costa, Ima Célia Guimarães Vieira, Bruno Barçante Ladvocat Cintra, Hernán Castellanos, Roel Brienen, Pablo R. Stevenson, Yuri Oliveira Feitosa, Joost F. Duivenvoorden, Gerardo A. Aymard C., Hugo F. Mogollón, Natália Targhetta, J. A. Comiskey, Alberto Vicentini, Aline Lopes, Gabriel Damasco, Nállarett Dávila, Roosevelt García‐Villacorta, Carolina Levis, Juliana Schietti, Priscila Souza, Thaíse Emilio, Alfonso Alonso, David Neill, Francisco Dallmeier, Leandro Valle Ferreira, Alejandro Araujo‐Murakami, Daniel Praia, Dário Dantas do Amaral, Fernanda Antunes Carvalho, Fernanda Coelho de Souza, Kenneth J. Feeley, Luzmila Arroyo, Marcelo Petratti Pansonato, Rogério Gribel, Boris Villa, Juan Carlos Licona, Paul V. A. Fine, Carlos Cerón, Christopher Baraloto, Eliana M. Jimenez, Juliana Stropp, Julien Engel, Marcos Silveira, M. C. Peñuela, Pascal Pétronelli, P.J.M. Maas, Raquel Thomas-Caesar, Terry W. Henkel, Doug Daly, Marcos Ríos Paredes, Tim R. Baker, Alfredo Fuentes, Carlos A. Peres, Jérôme Chave, Jose Luis Marcelo‐Peña, Kyle G. Dexter, Miles R. Silman, Peter M. Jørgensen, R. Toby Pennington, Anthony Di Fiore, Fernando Cornejo Valverde, Juan Fernando Phillips, Gonzalo Rivas‐Torres, Patricio von Hildebrand, Tinde van Andel, Ademir Roberto Ruschel, Adriana Prieto, Agustín Rudas, Bruce Hoffman, César I. A. Vela, Edelcílio Marques Barbosa, Egleé L. Zent, George Pepe Gallardo Gonzales, Hilda Paulette Dávila Doza, Íres Paula de Andrade Miranda, Jean-Louis Guillaumet, Linder Felipe Mozombite Pinto, Luiz Carlos de Matos Bonates, Natalino Silva, Ricardo Zárate Gómez, Stanford Zent, Therany Gonzales, Vincent Vos, Yadvinder Malhi, Alexandre Adalardo de Oliveira, Ángela Cano, Bianca Weiss Albuquerque, Corine Vriesendorp, Diego F. Correa, Emilio Vilanova Torre, Gregory van der Heijden, Hirma Ramírez‐Angulo, José Ferreira Ramos, Kenneth R. Young, Maíra da Rocha, Marcelo Trindade Nascimento, María Natalia Umaña Medina, Milton Tirado, Ophelia Wang, Rodrigo Sierra, Armando Torres‐Lezama, Casimiro Mendoza, Cid Ferreira, Cláudia Baider, Daniel Villarroel, Henrik Balslev, Italo Mesones, Ligia Estela Urrego Giraldo, Luisa Fernanda Casas, Manuel Augusto Ahuite Reategui, Reynaldo Linares-Palomino, Roderick Zagt, Sasha Cárdenas, William Farfán-Ríos, Adeilza Felipe Sampaio, Daniela Pauletto, Elvis H. Valderrama Sandoval, Freddy Ramírez Arévalo, Isau Huamantupa‐Chuquimaco, Karina García-Cabrera, Lionel Hernández, Luis Valenzuela Gamarra, Miguel Alexiades, Susamar Pansini, Walter Palacios Cuenca, William Milliken, Joana Ricardo, Gabriela Lopez‐Gonzalez, Edwin Pos, Hans ter Steege
Software Mentions: 9
Published: over 6 years ago

10.1038/s41598-020-69374-4

Against all odds: a tale of marine range expansion with maintenance of extremely high genetic diversity
Cited by: 8
Author(s): Joana Isabel Robalo, Sara Martins Francisco, Catarina Vendrell, Cristina S. Lima, Ana Pereira, Benedikt Brunner, Mamadou Dia, Leonel Serrano Gordo, Rita Castilho
Software Mentions: 8
Published: about 4 years ago

10.1186/gb-2012-13-4-r29

RedeR: R/Bioconductor package for representing modular structures, nested networks and multiple levels of hierarchical associations.
Cited by: 84
Author(s): Mauro A. A. Castro, Xin Wang, Michael Fletcher, Kerstin B. Meyer, Florian Markowetz
Software Mentions: 7
Published: over 12 years ago

10.1371/journal.pone.0256868

Ensemble ecological niche modeling of West Nile virus probability in Florida
Cited by: 10
Author(s): Sean P. Beeman, Andrea Morrison, Thomas R. Unnasch, Robert S. Unnasch
Software Mentions: 6
Published: almost 3 years ago

10.1186/s13071-015-1038-4

Malaria vectors in South America: current and future scenarios
Cited by: 53
Author(s): Gabriel Zorello Laporta, Yvonne‐Marie Linton, Richard C. Wilkerson, Eduardo Sterlino Bergo, Sandra Sayuri Nagaki, Denise Cristina Sant'Ana, Maria Anice Mureb Sallum
Software Mentions: 6
Published: about 9 years ago

10.1002/ece3.2771

Low leopard populations in protected areas of Maputaland: a consequence of poaching, habitat condition, abundance of prey, and a top predator
Cited by: 32
Author(s): Tharmalingam Ramesh, Riddhika Kalle, Håvard Rosenlund, Colleen T. Downs
Software Mentions: 6
Published: over 7 years ago

10.1017/cts.2017.310

RRApp, a robust randomization app, for clinical and translational research
Cited by: 9
Author(s): Chengcheng Tu, Emma K. T. Benn
Software Mentions: 6
Published: almost 7 years ago

10.1093/conphys/coz101

Does environmental stress affect cortisol biodistribution in freshwater mussels?
Cited by: 3
Author(s): Anna Ronja Dorothea Binder, Michael W. Pfaffl, Felix Hiltwein, Juergen Geist, Sebastian Beggel
Software Mentions: 5
Published: over 5 years ago

10.1186/1756-0500-3-312

MetNetAPI: A flexible method to access and manipulate biological network data from MetNet
Cited by: 4
Author(s): Yves Sucaet, Eve Syrkin Wurtele
Software Mentions: 4
Published: almost 14 years ago

10.1099/mgen.0.000245

HomoplasyFinder: a simple tool to identify homoplasies on a phylogeny
Cited by: 48
Author(s): Joseph Crispell, Daniel Balaz, Stephen V. Gordon
Software Mentions: 4
Published: over 5 years ago

10.1093/conphys/coz003

FishResp: R package and GUI application for analysis of aquatic respirometry data
Cited by: 17
Author(s): Sergey Morozov, R. J. Scott McCairns, Juha Merilä
Software Mentions: 4
Published: over 5 years ago

10.1002/ece3.2580

Sensitivity analysis of Repast computational ecology models with R/Repast
Cited by: 2
Author(s): Ángel Hernández García, Alfonso Rodríguez‐Patón
Software Mentions: 4
Published: almost 8 years ago

10.1186/s12916-018-1039-1

Performance of InSilicoVA for assigning causes of death to verbal autopsies: multisite validation study using clinical diagnostic gold standards
Cited by: 19
Author(s): Abraham D. Flaxman, Jonathan Joseph, Christopher J L Murray, Ian Riley, Alan D. López
Software Mentions: 4
Published: over 6 years ago

10.3390/healthcare9081016

Development of a System for Storing and Executing Bio-Signal Analysis Algorithms Developed in Different Languages
Cited by: 0
Author(s): Moon-Il Joo, Satyabrata Aich, Hee Cheol Kim
Software Mentions: 3
Published: about 3 years ago

10.1186/s12859-017-1783-9

eccCL: parallelized GPU implementation of Ensemble Classifier Chains
Cited by: 2
Author(s): Mona Riemenschneider, Alexander Herbst, Ari Rasch, Sergei Gorlatch, Dominik Heider
Software Mentions: 2
Published: about 7 years ago

10.1186/1471-2105-15-98

TOPS: a versatile software tool for statistical analysis and visualization of combinatorial gene-gene and gene-drug interaction screens
Cited by: 6
Author(s): Markus K. Muellner, Gerhard Duernberger, Florian Ganglberger, Claudia Kerzendorfer, Iris Z. Uras, Andreas Schoenegger, Klaudia Bagienski, Jacques Colinge, Sebastian M. Nijman
Software Mentions: 2
Published: over 10 years ago

10.2196/12341

An Integrated Influenza Surveillance Framework Based on National Influenza-Like Illness Incidence and Multiple Hospital Electronic Medical Records for Early Prediction of Influenza Epidemics: Design and Evaluation
Cited by: 12
Author(s): Cheng Kuang Yang, Ray Jade Chen, Wan-Lin Chou, Yuarn Jang Lee, Yu-Sheng Lo
Software Mentions: 1
Published: over 5 years ago

10.1186/s12859-019-2982-3

JPhyloIO: a Java library for event-based reading and writing of different phylogenetic file formats through a common interface
Cited by: 0
Author(s): Ben C Stöver, Sarah Wiechers, Kai Müller
Software Mentions: 1
Published: about 5 years ago

10.1186/s12864-016-3207-z

CASTIN: a system for comprehensive analysis of cancer-stromal interactome
Cited by: 10
Author(s): Daisuke Komura, Takayuki Isagawa, Kazuki Kishi, Ryôhei Suzuki, Reiko Sato, Mariko Tanaka, Hiroto Katoh, Shozo Yamamoto, Kenji Tatsuno, Masashi Fukayama, Hiroyuki Aburatani, Shumpei Ishikawa
Software Mentions: 1
Published: almost 8 years ago

10.1155/2017/4873459

Adaptive Resource Utilization Prediction System for Infrastructure as a Service Cloud
Cited by: 27
Author(s): Qazi Zia Ullah, Shahzad Hassan, Gul Muhammad Khan
Software Mentions: 1
Published: over 7 years ago

Ecosyste.ms: Papers

Projects: cran: rJava

Papers Mentioning rJava 28