Preprints (not yet peer-reviewed)

338 downloads
864 views

The sharing and re-use of data has become a cornerstone of modern science. Multiple platforms now allow quick and easy data sharing. So far, however, data publishing models have not accommodated on-going scientific improvements in data: for many problems, datasets...

["Computational Biology","Ecology","Computational Science","Data Science"]
doi:10.7287/peerj.preprints.3401v1
65 downloads
294 views

Background. The number of individuals of each species in a given location forms the basis for many sub-fields of ecology and evolution. Data on individuals, including which species, and where they're found can be used for a large number of research questions. Global...

["Bioinformatics","Ecology","Computational Science"]
doi:10.7287/peerj.preprints.3304v1
159 downloads
180 views

Emerging infectious diseases caused by fungal taxa are increasing and are placing a substantial burden on economies and ecosystems worldwide. Of the emerging fungal diseases, chytridomycosis caused by the fungus Batrachochytrium dendrobatidis (hereafter Bd) is...

["Ecology","Microbiology","Mycology","Computational Science"]
doi:10.7287/peerj.preprints.3017v1
136 downloads
437 views

Taxonomic markers such as the 16S ribosomal RNA gene are widely used in microbial community analysis. A common first step in marker-gene analysis is grouping genes into clusters to reduce data sets to a more manageable size and potentially mitigate the effects...

["Bioinformatics","Ecology","Microbiology","Computational Science"]
doi:10.7287/peerj.preprints.2879v1
328 downloads
749 views

To answer many of the major questions in comparative botany, ecology, and global change biology it is necessary to extrapolate across enormous geographic, temporal and taxonomic scales. Yet much ecological knowledge is still based on observations conducted within...

["Biodiversity","Biogeography","Bioinformatics","Ecology","Computational Science"]
doi:10.7287/peerj.preprints.2615v2
475 downloads
2,141 views

1. While phylogenies have been getting easier to build, it has been difficult to re-use, combine, and synthesize the information they provide because published trees are often only available as image files, and taxonomic information is not standardized across studies....

["Computational Biology","Ecology","Evolutionary Studies","Computational Science"]
doi:10.7287/peerj.preprints.1471v3
1,409 downloads
445 views

The natural sciences, such as ecology and earth science, study complex interactions between biotic and abiotic systems in order to infer understanding and make predictions. Machine-learning-based methods have an advantage over traditional statistical methods in...

["Bioinformatics","Ecology","Statistics","Computational Science"]
doi:10.7287/peerj.preprints.1720v1
74 downloads
328 views

Coastal areas are characterized by several disturbances due to the presence of numerous anthropic activities that may alter the health status and ecological functioning of Posidonia oceanica meadows. The reduction of seawater transparency and the increase of sedimentation...

["Ecology","Environmental Sciences","Plant Science","Computational Science"]
doi:10.7287/peerj.preprints.1011v1
322 downloads
421 views

Background. Integration of reductionist and holistic approaches is one of the great challenges for mathematical modeling. Mathematical models of complex systems are divided into black-box, white-box and grey-box types. A black-box model is completely nonmechanistic...

["Biophysics","Computational Biology","Ecology","Mathematical Biology","Computational Science"]
doi:10.7287/peerj.preprints.762v1
351 downloads
1,337 views

Ecological variables such as species richness (S) and total abundance (N) can strongly influence ecological patterns. For example, the general form of the species abundance distribution (SAD) can often be explained by the majority of possible forms having the same...

["Biodiversity","Computational Biology","Ecology","Mathematical Biology","Computational Science"]
doi:10.7287/peerj.preprints.78v2
484 downloads
932 views

Probability (\(P\)) of binomial event is a commonly estimated quantity in ecology. Recently, interest has moved to estimation and communication of the associated uncertainty about the estimates of \(P\). Here I use the principle of maximum entropy to introduce...

["Ecology","Statistics","Computational Science"]
doi:10.7287/peerj.preprints.446v1
286 downloads
392 views

Motivation: In environmental risk assessment, information about potential health risks of chemicals released into the environment is compiled and distilled for use in informing public policy. The U.S. Environmental Protection Agency (EPA) produces Integrated Science...

["Ecology","Environmental Sciences","Toxicology","Computational Science","Science Policy"]
doi:10.7287/peerj.preprints.300v1
535 downloads
1,538 views

Connectance and degree distributions are important components of the structure of ecological networks. In this contribution, we use a statistical argument and simple network generating models to show that properties of the degree distribution are driven by network...

["Biodiversity","Ecology","Computational Science","Statistics"]
doi:10.7287/peerj.preprints.50v4
5,736 downloads
13,785 views

Sharing data is increasingly considered to be an important part of the scientific process. Making your data publicly available allows original results to be reproduced and new analyses to be conducted. While sharing your data is the first step in allowing reuse,...

["Computational Biology","Ecology","Evolutionary Studies","Computational Science"]
doi:10.7287/peerj.preprints.7v2
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