cran: doParallel | Projects | Ecosyste.ms: Papers

10.3390/ijms22063251

Untargeted In Silico Compound Classification—A Novel Metabolomics Method to Assess the Chemodiversity in Bryophytes
Cited by: 11
Author(s): Kristian Peters, Gerd Ulrich Balcke, Niklas Kleinenkuhnen, Hendrik Treutler, Steffen Neumann
Software Mentions: 31
Published: over 3 years ago

10.7717/peerj-cs.175

Software engineering principles to improve quality and performance of R software
Cited by: 0
Author(s): Seth Russell, Tellen D. Bennett, Debashis Ghosh
Software Mentions: 29
Published: almost 6 years ago

10.1016/j.xpro.2020.100085

Protocol for Identification and Removal of Doublets with DoubletDecon
Cited by: 7
Author(s): Erica A. K. DePasquale, Daniel Schnell, Kashish Chetal, Nathan Salomonis
Software Mentions: 25
Published: about 4 years ago

10.3389/fmolb.2020.570702

Prognostic Prediction Using a Stemness Index-Related Signature in a Cohort of Gastric Cancer
Cited by: 27
Author(s): Xiaowei Chen, Dawei Zhang, Fei Jiang, Yan Shen, Xin Li, Xin Hu, Pingmin Wei, Xiaobing Shen
Software Mentions: 24
Published: about 4 years ago

10.3390/genes11030257

mRNAsi Index: Machine Learning in Mining Lung Adenocarcinoma Stem Cell Biomarkers
Cited by: 61
Author(s): Yitong Zhang, Joseph T. Tseng, I-Chia Lien, Fenglan Li, Wei Wu, Hui Li
Software Mentions: 20
Published: over 4 years ago

10.1186/s12866-021-02282-3

Associations between the gut microbiome and metabolome in early life
Cited by: 14
Author(s): Quang P. Nguyen, Margaret R. Karagas, Juliette C. Madan, Erika Dade, Thomas J. Palys, Hilary G. Morrison, Wimal Pathmasiri, Susan McRitche, Susan Sumner, H. Robert Frost, Anne G. Hoen
Software Mentions: 19
Published: about 3 years ago

10.3389/fonc.2021.646267

Exploring MRI Characteristics of Brain Diffuse Midline Gliomas With the H3 K27M Mutation Using Radiomics
Cited by: 13
Author(s): Qian Li, Fei Dong, Biao Jiang, Minming Zhang
Software Mentions: 18
Published: over 3 years ago

10.1186/s13059-021-02295-1

gapseq: informed prediction of bacterial metabolic pathways and reconstruction of accurate metabolic models
Cited by: 77
Author(s): Johannes Zimmermann, Christoph Kaleta, Silvio Waschina
Software Mentions: 18
Published: over 3 years ago

10.1084/jem.20200920

Single-cell analyses identify circulating anti-tumor CD8 T cells and markers for their enrichment
Cited by: 57
Author(s): Kristen E. Pauken, Osmaan Shahid, Kaitlyn A. Lagattuta, Kelly Mahuron, Jacob M. Luber, Margaret M. Lowe, Lüping Huang, Conor P. Delaney, Jaclyn M. Long, Megan E. Fung, Kathleen Newcomer, Katy K. Tsai, Melissa Chow, Samantha Guinn, Juhi R. Kuchroo, Kelly P. Burke, Jason M. Schenkel, Michael D. Rosenblum, Adil Daud, Arlene H. Sharpe, Meromit Singer
Software Mentions: 17
Published: over 3 years ago

10.1371/journal.pone.0232822

SimSurvey: An R package for comparing the design and analysis of surveys by simulating spatially-correlated populations
Cited by: 5
Author(s): Paul M. Regular, Gregory J. Robertson, Keith P. Lewis, Jonathan Babyn, Brian Healey, Fran Mowbray
Software Mentions: 17
Published: over 4 years ago

10.1371/journal.pgen.1008927

On the cross-population generalizability of gene expression prediction models
Cited by: 34
Author(s): Kevin L. Keys, Angel C. Y. Mak, Marquitta J. White, Walter L. Eckalbar, Andrew Dahl, Joel Mefford, Anna V. Mikhaylova, María G. Contreras, Jennifer R. Elhawary, Celeste Eng, Donglei Hu, Scott Huntsman, Sam S. Oh, Sandra Salazar, Michael A. LeNoir, Jimmie C. Ye, Timothy A. Thornton, Noah Zaitlen, Esteban G. Burchard, Christopher R. Gignoux
Software Mentions: 16
Published: over 4 years ago

10.1186/s12859-020-03860-4

Finding a suitable library size to call variants in RNA-Seq
Cited by: 3
Author(s): Anna Quaglieri, Christoffer Flensburg, Terence P. Speed, Ian J. Majewski
Software Mentions: 15
Published: almost 4 years ago

10.3390/biom10081095

Glutenin and Gliadin, a Piece in the Puzzle of their Structural Properties in the Cell Described through Monte Carlo Simulations
Cited by: 26
Author(s): Joel Markgren, Mikael S. Hedenqvist, Faiza Rasheed, Marie Skepö, Eva Johansson
Software Mentions: 15
Published: over 4 years ago

10.1371/journal.pcbi.1005158

Machine Learning for Characterization of Insect Vector Feeding
Cited by: 25
Author(s): Denis S. Willett, Justin George, Nora S. Willett, Lukasz L. Stelinski, Stephen L. Lapointe
Software Mentions: 14
Published: about 8 years ago

10.1371/journal.pone.0212669

Batch adjustment by reference alignment (BARA): Improved prediction performance in biological test sets with batch effects
Cited by: 3
Author(s): Robin Gradin, Malin Lindstedt, Henrik J. Johansson
Software Mentions: 13
Published: over 5 years ago

10.1007/s12035-018-1112-y

Differentiation-Induced Remodelling of Store-Operated Calcium Entry Is Independent of Neuronal or Glial Phenotype but Modulated by Cellular Context
Cited by: 5
Author(s): Claire Whitworth, Christopher P.F. Redfern, Timothy R. Cheek
Software Mentions: 13
Published: over 6 years ago

10.1038/srep36460

Overlooked habitat of a vulnerable gorgonian revealed in the Mediterranean and Eastern Atlantic by ecological niche modelling
Cited by: 28
Author(s): Joana Boavida, Jorge Assis, Inga Silva, Ester A. Serrão
Software Mentions: 13
Published: about 8 years ago

10.3389/fmicb.2021.616013

Distribution of Bacterial Endophytes in the Non-lesion Tissues of Potato and Their Response to Potato Common Scab
Cited by: 7
Author(s): Wencong Shi, Gaoya Su, Mingcong Li, Bing Wang, Runmao Lin, Yang Yu-tian, Tao Wei, Bo Zhou, Zheng Gao
Software Mentions: 13
Published: almost 4 years ago

10.3389/fmicb.2020.02033

Plasmid Interactions Can Improve Plasmid Persistence in Bacterial Populations
Cited by: 24
Author(s): João Alves Gama, Rita Zilhão, Francisco Dionísio
Software Mentions: 13
Published: about 4 years ago

10.7554/eLife.34409

General decapping activators target different subsets of inefficiently translated mRNAs
Cited by: 40
Author(s): Feng He, Alper Çelik, Chan Wu, Allan Jacobson
Software Mentions: 12
Published: almost 6 years ago

10.1186/s12919-016-0015-z

Analysis of gene expression to predict dynamics of future hypertension incidence in type 2 diabetic patients
Cited by: 8
Author(s): Piotr Radkowski, Gracjan Wątor, Jan Skupień, Anna Bogdali, Paweł Wołkow
Software Mentions: 12
Published: about 8 years ago

10.1371/journal.pone.0244005

DDRP: Real-time phenology and climatic suitability modeling of invasive insects
Cited by: 13
Author(s): Brittany S. Barker, Leonard B. Coop, Tyson Wepprich, Fritzi S. Grevstad, Gericke Cook
Software Mentions: 12
Published: almost 4 years ago

10.1038/srep44348

Major shifts at the range edge of marine forests: the combined effects of climate changes and limited dispersal
Cited by: 70
Author(s): Jorge Assis, Estíbaliz Berecibar, Bruno Claro, Filipe Alberto, Daniel C. Reed, Peter T. Raimondi, Ester Á. Serrão
Software Mentions: 11
Published: over 7 years ago

10.1186/s12894-019-0479-z

Where is the limit of prostate cancer biomarker research? Systematic investigation of potential prognostic and diagnostic biomarkers
Cited by: 2
Author(s): Anika Kremer, Tobias Kremer, Glen Kristiansen, Yuri Tolkach
Software Mentions: 11
Published: over 5 years ago

10.1371/journal.pone.0178895

Familiarity facilitates feature-based face processing
Cited by: 18
Author(s): Matteo Visconti di Oleggio Castello, Kelsey G. Wheeler, Carlo Cipolli, M. Ida Gobbini
Software Mentions: 10
Published: over 7 years ago

10.1186/s12864-016-2737-8

Cogena, a novel tool for co-expressed gene-set enrichment analysis, applied to drug repositioning and drug mode of action discovery
Cited by: 55
Author(s): Zhilong Jia, Ying Liu, Naiyang Guan, Xiaochen Bo, Zhi-Gang Luo, Michael R. Barnes
Software Mentions: 10
Published: over 8 years ago

10.3389/fgene.2021.616686

Identifying Differentially Expressed Genes of Zero Inflated Single Cell RNA Sequencing Data Using Mixed Model Score Tests
Cited by: 2
Author(s): Zhiqiang He, Yueyun Pan, Fang Shao, Hui Wang
Software Mentions: 10
Published: almost 4 years ago

10.3390/jintelligence6030030

The Relation of Personality and Intelligence—What Can the Brunswik Symmetry Principle Tell Us?
Cited by: 80
Author(s): André Kretzschmar, Marion Spengler, Anna‐Lena Schubert, Ricarda Steinmayr, Matthias Ziegler
Software Mentions: 9
Published: over 6 years ago

10.1371/journal.pone.0165881

High Interannual Variability in Connectivity and Genetic Pool of a Temperate Clingfish Matches Oceanographic Transport Predictions
Cited by: 14
Author(s): Maria Klein, Sara Teixeira, Jorge Assis, Ester A. Serrão, Emanuel João Gonçalves, Rita Alexandra Borges
Software Mentions: 9
Published: almost 8 years ago

10.1186/s12859-020-3463-4

ORdensity: user-friendly R package to identify differentially expressed genes
Cited by: 0
Author(s): José María Martínez-Otzeta, Itziar Irigoien, Basilio Sierra, C. Arenas
Software Mentions: 9
Published: over 4 years ago

10.1371/journal.ppat.1009068

Modeling intra-mosquito dynamics of Zika virus and its dose-dependence confirms the low epidemic potential of Aedes albopictus
Cited by: 16
Author(s): Sébastian Lequime, Jean-Sébastien Dehecq, Séverine Matheus, Franck de Laval, Lionel Alméras, Sébastien Briolant, Albin Fontaine
Software Mentions: 9
Published: almost 4 years ago

10.1186/s12859-016-1323-z

variancePartition: interpreting drivers of variation in complex gene expression studies
Cited by: 390
Author(s): Gabriel E. Hoffman, Eric E. Schadt
Software Mentions: 9
Published: almost 8 years ago

10.1186/s13059-019-1664-9

RnBeads 2.0: comprehensive analysis of DNA methylation data
Cited by: 188
Author(s): Fabian Müller, Michael Scherer, Yassen Assenov, Pavlo Lutsik, Jörn Walter, Thomas Lengauer, Christoph Bock
Software Mentions: 8
Published: over 5 years ago

10.1038/s41598-017-11110-6

A Novel Statistical Method to Diagnose, Quantify and Correct Batch Effects in Genomic Studies
Cited by: 29
Author(s): Gift Nyamundanda, Pawan Poudel, Yatish Patil, Anguraj Sadanandam
Software Mentions: 8
Published: about 7 years ago

10.1371/journal.pcbi.1007832

Flux-based hierarchical organization of Escherichia coli’s metabolic network
Cited by: 2
Author(s): Semidán Robaina-Estévez, Zoran Nikoloski
Software Mentions: 8
Published: over 4 years ago

10.1371/journal.pone.0239623

A non-parametric effect-size measure capturing changes in central tendency and data distribution shape
Cited by: 5
Author(s): Jörn Lötsch, Alfred Ultsch
Software Mentions: 8
Published: about 4 years ago

10.1371/journal.pone.0238422

SSNdesign—An R package for pseudo-Bayesian optimal and adaptive sampling designs on stream networks
Cited by: 4
Author(s): Alan R. Pearse, James McGree, Nicholas A. Som, Catherine Leigh, Paul Maxwell, Jay M. Ver Hoef, Erin E. Peterson
Software Mentions: 8
Published: about 4 years ago

10.1038/s41598-019-51582-2

Habitat availability explains variation in climate-driven range shifts across multiple taxonomic groups
Cited by: 75
Author(s): Philip J. Platts, Suzanna C. Mason, Graham Palmer, Jane K. Hill, Tom H. Oliver, Gary D. Powney, Richard Fox, Chris D. Thomas
Software Mentions: 7
Published: about 5 years ago

10.3390/genes10100778

DNA Methylation Markers for Pan-Cancer Prediction by Deep Learning
Cited by: 48
Author(s): Biao Liu, Yulu Liu, Xingxin Pan, Mengyao Li, Shuang Yang, Shuai Cheng Li
Software Mentions: 7
Published: about 5 years ago

10.7717/peerj.1366

Taking account of uncertainties in digital land suitability assessment
Cited by: 14
Author(s): Brendan Malone, Darren Kidd, Budiman Minasny, Alex B. McBratney
Software Mentions: 7
Published: about 9 years ago

10.1002/ece3.4134

A simple function for full-subsets multiple regression in ecology with R
Cited by: 103
Author(s): Rebecca Fisher, Shaun K. Wilson, Tsai Min Sin, Ai C. Lee, Tim Langlois
Software Mentions: 7
Published: over 6 years ago

10.1371/journal.pone.0243208

Two-stage topic modelling of scientific publications: A case study of University of Nairobi, Kenya
Cited by: 16
Author(s): Leacky K Muchene, Wende Clarence Safari
Software Mentions: 6
Published: almost 4 years ago

10.3390/ijms21218160

Proteomic Profiling of Archived Tissue of Primary Melanoma Identifies Proteins Associated with Metastasis
Cited by: 3
Author(s): Andrew Shapanis, Chester Lai, Mathew Sommerlad, Erika Parkinson, Eugene Healy, Paul Skipp
Software Mentions: 6
Published: about 4 years ago

10.1371/journal.pone.0189616

HTSSIP: An R package for analysis of high throughput sequencing data from nucleic acid stable isotope probing (SIP) experiments
Cited by: 37
Author(s): Nicholas D. Youngblut, Samuel E. Barnett, Daniel H. Buckley
Software Mentions: 6
Published: almost 7 years ago

10.1128/mBio.01557-20

Generation of Comprehensive Ecosystem-Specific Reference Databases with Species-Level Resolution by High-Throughput Full-Length 16S rRNA Gene Sequencing and Automated Taxonomy Assignment (AutoTax)
Cited by: 55
Author(s): Morten Simonsen Dueholm, Kasper Skytte Andersen, Simon Jon McIlroy, Jannie Munk Kristensen, Erika Yashiro, Søren Michael Karst, Mads Albertsen, Per Halkjær Nielsen
Software Mentions: 6
Published: about 4 years ago

10.1371/journal.pone.0204970

Network of small no-take marine reserves reveals greater abundance and body size of fisheries target species
Cited by: 28
Author(s): Fernanda A. Rolim, Tim Langlois, Pedro Furtado Costa Rodrigues, Todd Bond, Fábio S. Motta, Leonardo Mitrano Neves, Otto Bismarck Fazzano Gadig
Software Mentions: 6
Published: almost 6 years ago

10.1371/journal.ppat.1007187

Epidemiological significance of dengue virus genetic variation in mosquito infection dynamics
Cited by: 39
Author(s): Albin Fontaine, Sébastian Lequime, Isabelle Moltini-Conclois, Davy Jiolle, Isabelle Leparc-Goffart, Robert C. Reiner, Louis Lambrechts
Software Mentions: 6
Published: over 6 years ago

10.1186/s12954-019-0289-3

Prevalence of injecting drug use in Estonia 2010–2015: a capture-recapture study
Cited by: 6
Author(s): Mait Raag, Sigrid Vorobjov, Anneli Uusküla
Software Mentions: 6
Published: over 5 years ago

10.1186/s43093-020-00041-w

Machine learning predictivity applied to consumer creditworthiness
Cited by: 13
Author(s): Maisa Cardoso Aniceto, Flávio Barboza, Herbert Kimura
Software Mentions: 6
Published: about 4 years ago

10.1371/journal.pone.0111661

How Difficult Is Inference of Mammalian Causal Gene Regulatory Networks?
Cited by: 18
Author(s): Djordje Djordjevic, Andrian Yang, Armella Zadoorian, Kevin Rungrugeecharoen, Joshua W. K. Ho
Software Mentions: 6
Published: about 10 years ago

10.1111/1556-4029.14482

Getting Rid of Dichotomous Sex Estimations: Why Logistic Regression Should be Preferred Over Discriminant Function Analysis
Cited by: 13
Author(s): Björn Bartholdy, Elena Sandoval, Menno L. P. Hoogland, Sarah Schrader
Software Mentions: 6
Published: over 4 years ago

10.1128/mSystems.00613-20

Interplay between Position-Dependent Codon Usage Bias and Hydrogen Bonding at the 5ʹ End of ORFeomes
Cited by: 6
Author(s): Juan C. Villada, Maria F. Duran, Patrick K. H. Lee
Software Mentions: 6
Published: about 4 years ago

10.1186/s12859-015-0581-5

GENLIB: an R package for the analysis of genealogical data
Cited by: 14
Author(s): Héloïse Gauvin, Jean‐François Lefebvre, Claudia Moreau, Ève-Marie Lavoie, Damian Labuda, Hélène Vézina, Marie-Hélène Roy-Gagnon
Software Mentions: 6
Published: over 9 years ago

10.1038/s41598-020-75062-0

MutSignatures: an R package for extraction and analysis of cancer mutational signatures
Cited by: 27
Author(s): Damiano Fantini, Vania Vidimar, Yu Yu, Salvatore Condello, Joshua J. Meeks
Software Mentions: 5
Published: about 4 years ago

10.1186/s12859-018-2115-4

Notos - a galaxy tool to analyze CpN observed expected ratios for inferring DNA methylation types
Cited by: 6
Author(s): Ingo Bulla, Benoît Aliaga, Virginia Lacal, Jan Bulla, Christoph Grunau, Cristian Chaparro
Software Mentions: 5
Published: over 6 years ago

10.7717/peerj.3797

Variance component testing for identifying differentially expressed genes in RNA-seq data
Cited by: 3
Author(s): Sheng Yang, Fang Shao, Weiwei Duan, Yang Zhao, Feng Chen
Software Mentions: 5
Published: about 7 years ago

10.1371/journal.pone.0172572

Systematic analysis of non-structural protein features for the prediction of PTM function potential by artificial neural networks
Cited by: 8
Author(s): Henry Dewhurst, Matthew P. Torres
Software Mentions: 5
Published: over 7 years ago

10.1371/journal.pone.0157703

A Fit-Fat Index for Predicting Incident Diabetes in Apparently Healthy Men: A Prospective Cohort Study
Cited by: 23
Author(s): Robert A. Sloan, Benjamin Haaland, Susumu S. Sawada, I-Min Lee, Xuemei Sui, Duck-chul Lee, Yassine Ridouane, Falk Müller‐Riemenschneider, Steven N. Blair
Software Mentions: 5
Published: over 8 years ago

10.1016/j.gpb.2020.06.006

mrMLM v4.0.2: An R Platform for Multi-locus Genome-wide Association Studies
Cited by: 78
Author(s): Yawen Zhang, Cox Lwaka Tamba, Yang Wen, Pei Li, Wenlong Ren, Yuanli Ni, Jun Gao, Yuanming Zhang
Software Mentions: 5
Published: over 4 years ago

10.1093/jamiaopen/ooab065

P2T2: Protein Panoramic annoTation Tool for the interpretation of protein coding genetic variants
Cited by: 0
Author(s): Elias DeVoe, Gavin R. Oliver, Roman M. Zenka, Patrick R. Blackburn, Margot A. Cousin, Nicole J. Boczek, Jean-Pierre A. Kocher, Raúl Urrutia, Eric W. Klee, Michael T. Zimmermann
Software Mentions: 5
Published: over 3 years ago

10.1038/s41598-020-62782-6

Exploring the configuration spaces of surface materials using time-dependent diffraction patterns and unsupervised learning
Cited by: 4
Author(s): Daniel M. Packwood
Software Mentions: 5
Published: over 4 years ago

10.3389/fgene.2021.655638

Alternative Ways of Computing the Numerator Relationship Matrix
Cited by: 4
Author(s): Mohammad Ali Nilforooshan, Dorian J. Garrick, B. L. Harris
Software Mentions: 4
Published: over 3 years ago

10.1371/journal.pone.0161569

bcRep: R Package for Comprehensive Analysis of B Cell Receptor Repertoire Data
Cited by: 23
Author(s): Julia Bischof, Saleh M. Ibrahim
Software Mentions: 4
Published: about 8 years ago

10.1371/journal.pcbi.1009144

PEDF, a pleiotropic WTC-LI biomarker: Machine learning biomarker identification and validation
Cited by: 5
Author(s): George Crowley, James Kim, Sophia Kwon, Rachel Lam, David J. Prezant, Mengling Liu, Anna Nolan
Software Mentions: 4
Published: over 3 years ago

10.1186/s41065-020-00124-2

ggroups: an R package for pedigree and genetic groups data
Cited by: 3
Author(s): Mohammad Ali Nilforooshan, Luis Antonio Saavedra-Jiménez
Software Mentions: 4
Published: over 4 years ago

10.3389/fimmu.2021.607827

Validation and Optimization of Host Immunological Bio-Signatures for a Point-of-Care Test for TB Disease
Cited by: 22
Author(s): Hygon Mutavhatsindi, Gian D. van der Spuy, Stephanus T. Malherbe, Jayne S. Sutherland, Annemieke Geluk, Harriet Mayanja‐Kizza, Amelia C. Crampin, Desta Kassa, Rawleigh Howe, Adane Mihret, Jacob Sheehama, Emmanuel Nepolo, Gunar Günther, Hazel M. Dockrell, Paul L. A. M. Corstjens, Kim Stanley, Gerhard Walzl, Novel N. Chegou, Ae-Tbc ScreenTB Consortia
Software Mentions: 4
Published: over 3 years ago

10.3390/s21186063

Analyzing Particularities of Sensor Datasets for Supporting Data Understanding and Preparation
Cited by: 1
Author(s): Francisco Javier Nieto, Unai Aguilera, Diego López-de-Ipiña
Software Mentions: 4
Published: about 3 years ago

10.1093/gigascience/giaa113

Prediction of single-cell gene expression for transcription factor analysis
Cited by: 11
Author(s): Fatemeh Behjati Ardakani, Kathrin Kattler, Tobias Heinen, Florian Schmidt, David Feuerborn, Gilles Gasparoni, Konstantin Lepikhov, Patrick Nell, Jan G. Hengstler, Jörn Walter, Marcel H. Schulz
Software Mentions: 4
Published: about 4 years ago

10.3389/fphys.2018.01328

A Novel Data-Driven Boolean Model for Genetic Regulatory Networks
Cited by: 10
Author(s): Leshi Chen, Don Kulasiri, Sandhya Samarasinghe
Software Mentions: 4
Published: about 6 years ago

10.3390/ijerph18115538

Analysis of Effectiveness of a Supplement Combining Harpagophytum procumbens, Zingiber officinale and Bixa orellana in Healthy Recreational Runners with Self-Reported Knee Pain: A Pilot, Randomized, Triple-Blind, Placebo-Controlled Trial
Cited by: 7
Author(s): Marcela González‐Gross, Carlos Quesada-González, Javier Rueda, Manuel Sillero Quintana, Nicolas Issaly, Ángel Enrique Díaz, Eva Gesteiro, David Escobar-Toledo, Rafael Torres‐Peralta, Marc Roller, Amelia Guadalupe‐Grau
Software Mentions: 4
Published: over 3 years ago

10.1371/journal.pcbi.1007840

An open source tool to infer epidemiological and immunological dynamics from serological data: serosolver
Cited by: 12
Author(s): James A. Hay, Amanda Minter, Kylie E. C. Ainslie, Justin Lessler, Bingyi Yang, Derek A. T. Cummings, Adam J. Kucharski, Steven Riley
Software Mentions: 4
Published: over 4 years ago

10.1371/journal.pone.0236559

Understanding resource utilization and mortality in COPD to support policy making: A microsimulation study
Cited by: 0
Author(s): Elizabeth G. Bond, Lusine Abrahamyan, Mohammad Kaviul Anam Khan, Andrea S. Gershon, Murray Krahn, Ping Li, Rajibul Mian, Nicholas Mitsakakis, Mohsen Sadatsafavi, Teresa To, Petros Pechlivanoglou
Software Mentions: 3
Published: over 4 years ago

10.1186/s12898-019-0273-5

Species traits, patch turnover and successional dynamics: when does intermediate disturbance favour metapopulation occupancy?
Cited by: 3
Author(s): Frederico Mestre, Ricardo Pita, António Mira, Pedro Beja
Software Mentions: 3
Published: almost 5 years ago

10.1186/s13072-017-0131-7

A computational approach for the functional classification of the epigenome
Cited by: 3
Author(s): Francesco Gandolfi, Anna Tramontano
Software Mentions: 3
Published: over 7 years ago

10.1186/s12859-017-1854-y

Prediction of Human Phenotype Ontology terms by means of hierarchical ensemble methods
Cited by: 20
Author(s): Marco Notaro, Max Schubach, Peter N. Robinson, Giorgio Valentini
Software Mentions: 3
Published: about 7 years ago

10.1002/jrsm.1402

The median and the mode as robust meta‐analysis estimators in the presence of small‐study effects and outliers
Cited by: 12
Author(s): Fernando Pires Hartwig, George Davey Smith, Amand F. Schmidt, Jonathan A C Sterne, Julian P T Higgins, Jack Bowden
Software Mentions: 3
Published: over 4 years ago

10.1371/journal.pone.0238815

Evaluation of strategies using simulation model to control a potential outbreak of highly pathogenic avian influenza among poultry farms in Central Luzon, Philippines
Cited by: 5
Author(s): Roderick T. Salvador, Neil Tanquilut, Rosemarie Macmac, Kannika Na Lampang, Warangkhana Chaisowwong, Dirk U. Pfeiffer, Veerasak Punyapornwithaya
Software Mentions: 3
Published: about 4 years ago

10.1371/journal.pntd.0009108

An exploration of the protective effect of rodent species richness on the geographical expansion of Lassa fever in West Africa
Cited by: 5
Author(s): Kyung‐Duk Min, Jusun Hwang, María Cristina Schneider, Yeonghwa So, Ju-Yeun Lee, Sung-Il Cho
Software Mentions: 3
Published: almost 4 years ago

10.3390/genes10120996

A High-Performance Computing Implementation of Iterative Random Forest for the Creation of Predictive Expression Networks
Cited by: 21
Author(s): Ashley Cliff, Jonathon Romero, David Kainer, Angelica M. Walker, Anna Furches, Daniel Jacobson
Software Mentions: 3
Published: almost 5 years ago

10.1371/journal.pone.0153673

Improving the Spatial Prediction of Soil Organic Carbon Stocks in a Complex Tropical Mountain Landscape by Methodological Specifications in Machine Learning Approaches
Cited by: 60
Author(s): Mareike Ließ, Johannes Schmidt, Bruno Glaser
Software Mentions: 2
Published: over 8 years ago

10.1186/s12711-015-0094-8

Predicting haplotype carriers from SNP genotypes in Bos taurus through linear discriminant analysis
Cited by: 17
Author(s): Stefano Biffani, Corrado Dimauro, N.P.P. Macciotta, Attilio Rossoni, Alessandra Stella, Filippo Biscarini
Software Mentions: 2
Published: almost 10 years ago

10.1186/s12859-018-2397-6

EpiMethEx: a tool for large-scale integrated analysis in methylation hotspots linked to genetic regulation
Cited by: 5
Author(s): Saverio Candido, Giuseppe Alessandro Parasiliti Palumbo, Marzio Pennisi, Giulia Russo, Giuseppe Sgroi, Valentina Di Salvatore, Massimo Libra, Francesco Pappalardo
Software Mentions: 2
Published: almost 6 years ago

10.1371/journal.pone.0200733

Reducing effects of dispersal on the bias of 2-sample mark-recapture estimators of stream fish abundance
Cited by: 1
Author(s): James N. McNair, Carl R. Ruetz, Ariana Carlson, Jiyeon Suh
Software Mentions: 2
Published: over 6 years ago

10.1016/j.csbj.2021.07.033

PathExNET: A tool for extracting pathway expression networks from gene expression statistics
Cited by: 2
Author(s): George Minadakis, Alfonso Muñoz-Pomer Fuentes, George Tsouloupas, Irene Papatheodorou
Software Mentions: 2
Published: almost 4 years ago

10.1007/s11222-019-09909-6

Spectral density-based and measure-preserving ABC for partially observed diffusion processes. An illustration on Hamiltonian SDEs
Cited by: 13
Author(s): Evelyn Buckwar, Massimiliano Tamborrino, Irene Tubikanec
Software Mentions: 2
Published: about 5 years ago

10.1080/10618600.2019.1654880

Scalable Bayesian Inference for Coupled Hidden Markov and Semi-Markov Models
Cited by: 18
Author(s): Panayiota Touloupou, Bärbel Finkenstädt, Simon E. F. Spencer
Software Mentions: 2
Published: about 5 years ago

10.1186/s12859-021-03997-w

geneRFinder: gene finding in distinct metagenomic data complexities
Cited by: 5
Author(s): Raíssa Silva, Kleber Padovani, Fabiana Rodrigues de Góes, Ronnie Alves
Software Mentions: 1
Published: over 3 years ago

10.3390/vetsci7030107

Identification of High-Risk Areas for the Spread of Highly Pathogenic Avian Influenza in Central Luzon, Philippines
Cited by: 2
Author(s): Roderick T. Salvador, Neil Tanquilut, Kannika Na Lampang, Warangkhana Chaisowwong, Dirk U. Pfeiffer, Veerasak Punyapornwithaya
Software Mentions: 1
Published: over 4 years ago

10.3390/e22090989

Hybrid Harmony Search–Artificial Intelligence Models in Credit Scoring
Cited by: 8
Author(s): Rui Ying Goh, Lai Soon Lee, Hsin‐Vonn Seow, Kathiresan Gopal
Software Mentions: 1
Published: about 4 years ago

10.3758/s13428-020-01522-0

Accurate models vs. accurate estimates: A simulation study of Bayesian single-case experimental designs
Cited by: 10
Author(s): Prathiba Natesan, Larry V. Hedges
Software Mentions: 1
Published: almost 4 years ago

Projects: cran: doParallel

Papers Mentioning doParallel 90