标题
An investigation of irreproducibility in maximum likelihood phylogenetic inference
作者
关键词
-
出版物
Nature Communications
Volume 11, Issue 1, Pages -
出版商
Springer Science and Business Media LLC
发表日期
2020-11-30
DOI
10.1038/s41467-020-20005-6
参考文献
相关参考文献
注意:仅列出部分参考文献,下载原文获取全部文献信息。- The Multispecies Coalescent Model Outperforms Concatenation Across Diverse Phylogenomic Data Sets
- (2020) Xiaodong Jiang et al. SYSTEMATIC BIOLOGY
- Releasing uncurated datasets is essential for reproducible phylogenomics
- (2020) Eric D. Salomaki et al. Nature Ecology & Evolution
- RAxML-NG: a fast, scalable and user-friendly tool for maximum likelihood phylogenetic inference
- (2019) Alexey M Kozlov et al. BIOINFORMATICS
- Extensive loss of cell-cycle and DNA repair genes in an ancient lineage of bipolar budding yeasts
- (2019) Jacob L. Steenwyk et al. PLOS BIOLOGY
- ModelTest-NG: A New and Scalable Tool for the Selection of DNA and Protein Evolutionary Models
- (2019) Diego Darriba et al. MOLECULAR BIOLOGY AND EVOLUTION
- A study of the impact of data sharing on article citations using journal policies as a natural experiment
- (2019) Garret Christensen et al. PLoS One
- Reproducibility in Scientific Computing
- (2018) Peter Ivie et al. ACM COMPUTING SURVEYS
- ape 5.0: an environment for modern phylogenetics and evolutionary analyses in R
- (2018) Emmanuel Paradis et al. BIOINFORMATICS
- ASTRAL-III: polynomial time species tree reconstruction from partially resolved gene trees
- (2018) Chao Zhang et al. BMC BIOINFORMATICS
- MEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms
- (2018) Sudhir Kumar et al. MOLECULAR BIOLOGY AND EVOLUTION
- Dissecting the basis of novel trait evolution in a radiation with widespread phylogenetic discordance
- (2018) Meng Wu et al. MOLECULAR ECOLOGY
- Explosive diversification of marine fishes at the Cretaceous–Palaeogene boundary
- (2018) Michael E. Alfaro et al. Nature Ecology & Evolution
- Ancient hepatitis B viruses from the Bronze Age to the Medieval period
- (2018) Barbara Mühlemann et al. NATURE
- Tempo and Mode of Genome Evolution in the Budding Yeast Subphylum
- (2018) Xing-Xing Shen et al. CELL
- Open is not enough
- (2018) Xiaoli Chen et al. Nature Physics
- Evaluating Fast Maximum Likelihood-Based Phylogenetic Programs Using Empirical Phylogenomic Data Sets
- (2017) Xiaofan Zhou et al. MOLECULAR BIOLOGY AND EVOLUTION
- Reproducibility in Chemical Research
- (2016) Robert G. Bergman et al. ANGEWANDTE CHEMIE-INTERNATIONAL EDITION
- 1,500 scientists lift the lid on reproducibility
- (2016) Monya Baker NATURE
- Evaluating replicability of laboratory experiments in economics
- (2016) C. F. Camerer et al. SCIENCE
- An Integrated Perspective on Phylogenetic Workflows
- (2016) August Guang et al. TRENDS IN ECOLOGY & EVOLUTION
- Transparency in Ecology and Evolution: Real Problems, Real Solutions
- (2016) Timothy H. Parker et al. TRENDS IN ECOLOGY & EVOLUTION
- Irreproducibility in Preclinical Biomedical Research: Perceptions, Uncertainties, and Knowledge Gaps
- (2016) Michael F. Jarvis et al. TRENDS IN PHARMACOLOGICAL SCIENCES
- A new view of the tree of life
- (2016) Laura A. Hug et al. Nature Microbiology
- Exon capture phylogenomics: efficacy across scales of divergence
- (2015) Jason G. Bragg et al. Molecular Ecology Resources
- Coalescence vs. concatenation: Sophisticated analyses vs. first principles applied to rooting the angiosperms
- (2015) Mark P. Simmons et al. MOLECULAR PHYLOGENETICS AND EVOLUTION
- Estimating the reproducibility of psychological science
- (2015) SCIENCE
- Impacts of Terraces on Phylogenetic Inference
- (2015) Michael J. Sanderson et al. SYSTEMATIC BIOLOGY
- Public Data Archiving in Ecology and Evolution: How Well Are We Doing?
- (2015) Dominique G. Roche et al. PLOS BIOLOGY
- ASTRAL: genome-scale coalescent-based species tree estimation
- (2014) S. Mirarab et al. BIOINFORMATICS
- RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies
- (2014) Alexandros Stamatakis BIOINFORMATICS
- IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies
- (2014) Lam-Tung Nguyen et al. MOLECULAR BIOLOGY AND EVOLUTION
- Reproducibility
- (2014) M. McNutt SCIENCE
- The Phylogenetic Likelihood Library
- (2014) T. Flouri et al. SYSTEMATIC BIOLOGY
- Troubleshooting Public Data Archiving: Suggestions to Increase Participation
- (2014) Dominique G. Roche et al. PLOS BIOLOGY
- State-of the art methodologies dictate new standards for phylogenetic analysis
- (2013) Maria Anisimova et al. BMC EVOLUTIONARY BIOLOGY
- Data deposition: Missing data mean holes in tree of life
- (2013) Bryan T. Drew NATURE
- Mutational heterogeneity in cancer and the search for new cancer-associated genes
- (2013) Michael S. Lawrence et al. NATURE
- Genome-Wide Comparison of Medieval and Modern Mycobacterium leprae
- (2013) V. J. Schuenemann et al. SCIENCE
- Lost Branches on the Tree of Life
- (2013) Bryan T. Drew et al. PLOS BIOLOGY
- Inferring duplications, losses, transfers and incomplete lineage sorting with nonbinary species trees
- (2012) Maureen Stolzer et al. BIOINFORMATICS
- The case for open computer programs
- (2012) Darrel C. Ince et al. NATURE
- Anchored Hybrid Enrichment for Massively High-Throughput Phylogenomics
- (2012) Alan R. Lemmon et al. SYSTEMATIC BIOLOGY
- Ultraconserved Elements Anchor Thousands of Genetic Markers Spanning Multiple Evolutionary Timescales
- (2012) Brant C. Faircloth et al. SYSTEMATIC BIOLOGY
- Data archiving is a good investment
- (2011) Heather A. Piwowar et al. NATURE
- phangorn: phylogenetic analysis in R
- (2010) Klaus Peter Schliep BIOINFORMATICS
- Horizontal Transfer of a Large and Highly Toxic Secondary Metabolic Gene Cluster between Fungi
- (2010) Jason C. Slot et al. CURRENT BIOLOGY
- FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments
- (2010) Morgan N. Price et al. PLoS One
- New Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0
- (2010) Stéphane Guindon et al. SYSTEMATIC BIOLOGY
- Language Phylogenies Reveal Expansion Pulses and Pauses in Pacific Settlement
- (2009) R. D. Gray et al. SCIENCE
- Efficient computation of the phylogenetic likelihood function on multi-gene alignments and multi-core architectures
- (2008) A. Stamatakis et al. PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES
Add your recorded webinar
Do you already have a recorded webinar? Grow your audience and get more views by easily listing your recording on Peeref.
Upload NowCreate your own webinar
Interested in hosting your own webinar? Check the schedule and propose your idea to the Peeref Content Team.
Create Now