Gender differences and bias in open source: Pull request acceptance of women versus men |
98798 |
61528 |
Sci-Hub provides access to nearly all scholarly literature |
43818 |
13746 |
Statistical heartburn: An attempt to digest four pizza publications from the Cornell Food and Brand Lab |
24626 |
6365 |
The role of Twitter in the life cycle of a scientific publication |
17769 |
6441 |
The State of OA: A large-scale analysis of the prevalence and impact of Open Access articles |
17522 |
6250 |
Software development: do good manners matter? |
16458 |
1620 |
An empirical study of goto in C code |
15628 |
8345 |
Zika virus impairs growth in human neurospheres and brain organoids |
14357 |
3712 |
Nine simple ways to make it easier to (re)use your data |
13797 |
5743 |
The GRIM test: A simple technique detects numerous anomalies in the reporting of results in psychology |
10613 |
2186 |
Forecasting at scale |
9374 |
5664 |
CATALISE: a multinational and multidisciplinary Delphi consensus study of problems with language development. Phase 2. Terminology |
9183 |
4735 |
Publiphilia Impactfactorius: a new psychiatric syndrome among biomedical scientists? |
9166 |
764 |
The neck of Barosaurus: longer, wider and weirder than those of Diplodocus and other diplodocines |
7538 |
1292 |
Effects of library size variance, sparsity, and compositionality on the analysis of microbiome data |
6700 |
3304 |
Manipulating the alpha level cannot cure significance testing – comments on "Redefine statistical significance" |
6173 |
1970 |
What is the Truck Factor of popular GitHub applications? A first assessment |
5985 |
9212 |
Testing the hypothesis that routine sea ice coverage of 3-5 mkm2 results in a greater than 30% decline in population size of polar bears (Ursus maritimus) |
5951 |
1701 |
scikit-image: Image processing in Python |
5833 |
8789 |
The blue-green eggs of dinosaurs: How fossil metabolites provide insights into the evolution of bird reproduction |
5630 |
1583 |
The prehistory of biology preprints: a forgotten experiment from the 1960s |
5462 |
399 |
A surge of p-values between 0.041 and 0.049 in recent decades (but negative results are increasing rapidly too) |
5189 |
27630 |
Excuse me, do you have a moment to talk about version control? |
5189 |
1335 |
Opinionated analysis development |
5141 |
1099 |
Evidence based pathways to intervention for children with language disorders |
5114 |
1630 |
Do you speak open science? Resources and tips to learn the language |
5096 |
708 |
Data organization in spreadsheets |
4970 |
1359 |
Combined proteome and transcriptome analyses reveal that Zika virus circulating in Brazil alters cell cycle and neurogenic programmes in human neurospheres |
4803 |
1252 |
The earth is flat (p>0.05): Significance thresholds and the crisis of unreplicable research |
4803 |
1067 |
Problems in using p-curve analysis and text-mining to detect rate of p-hacking and evidential value |
4792 |
618 |
Making research data repositories visible: the re3data.org registry |
4755 |
1624 |
The four pillars of scholarly publishing: The future and a foundation |
4671 |
1086 |
Is the low-cost EyeTribe eye tracker any good for research? |
4616 |
10061 |
To crowdfund research, scientists must build an audience for their work |
4587 |
3251 |
Achieving human and machine accessibility of cited data in scholarly publications |
4542 |
1149 |
Draft sequencing and assembly of the genome of the world’s largest fish, the whale shark: Rhincodon typus Smith 1828 |
4284 |
1528 |
How to share data for collaboration |
4262 |
847 |
Autonomous Sensory Meridian Response (ASMR): A flow-like mental state |
4192 |
2398 |
Declutter your R workflow with tidy tools |
4169 |
1390 |
Research groups: how big should they be? |
4121 |
1216 |
Lack of quantitative training among early-career ecologists: a survey of the problem and potential solutions |
4118 |
1690 |
Imagining the ‘open’ university: Sharing scholarship to improve research and education |
4104 |
1326 |
CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes |
4085 |
2015 |
Dark Research: information content in many modern research papers is not easily discoverable online |
3827 |
1158 |
A nested phylogenetic reconstruction approach provides scalable resolution in the eukaryotic Tree Of Life |
3783 |
806 |
VSEARCH: a versatile open source tool for metagenomics |
3771 |
470 |
Sentieon DNA pipeline for variant detection - Software-only solution, over 20× faster than GATK 3.3 with identical results |
3758 |
1447 |
Angiosperm phylogeny poster (APP) – Flowering plant systematics, 2017 |
3680 |
1673 |
Lung cancer incidence decreases with elevation: evidence for oxygen as an inhaled carcinogen |
3623 |
389 |
Revised geochronology, correlation, and dinosaur stratigraphic ranges of the Santonian-Maastrichtian (Late Cretaceous) formations of the Western Interior of North America |
3533 |
462 |
The GRIMMER test: A method for testing the validity of reported measures of variability |
3459 |
455 |
Strain- and plasmid-level deconvolution of a synthetic metagenome by sequencing proximity ligation products |
3438 |
603 |
Accessing biological data in R with semantic web technologies |
3423 |
1382 |
CATALISE: a multinational and multidisciplinary Delphi consensus study. Identifying language impairments in children |
3410 |
981 |
OncoRank: A pan-cancer method of combining survival correlations and its application to mRNAs, miRNAs, and lncRNAs |
3373 |
447 |
Ten simple rules for digital data storage |
3294 |
1519 |
Identifying contamination with advanced visualization and analysis practices: metagenomic approaches for eukaryotic genome assemblies |
3213 |
1167 |
Validation and development of COI metabarcoding primers for freshwater macroinvertebrate bioassessment |
3161 |
1370 |
On the intrinsic sterility of 3D printing |
3145 |
1584 |
The first reported ceratopsid dinosaur from eastern North America (Owl Creek Formation, Upper Cretaceous, Mississippi, USA) |
3122 |
390 |
Sequencing 16S rRNA gene fragments using the PacBio SMRT DNA sequencing system |
3104 |
4418 |
Preliminary evidence of a new microbial species capable of sustainable intracellular survival and transfer in mammalian cell lines |
3097 |
2215 |
The democratization of data science education |
3075 |
1140 |
The impact of Docker containers on the performance of genomic pipelines |
3065 |
828 |
OSoMe: The IUNI observatory on social media |
3057 |
444 |
Swarm: robust and fast clustering method for amplicon-based studies |
3045 |
874 |
Swabs to genomes: a comprehensive workflow |
2989 |
1668 |
Mining usage patterns for the Android API |
2966 |
657 |
Best practice in mixed effects modelling and multi-model inference in ecology |
2946 |
1177 |
Crossing the streams: a framework for streaming analysis of short DNA sequencing reads |
2885 |
563 |
Cannabis chemovar classification: terpenes hyper-classes and targeted genetic markers for accurate discrimination of flavours and effects |
2861 |
300 |
Reproducible and reusable research: Are journal data sharing policies meeting the mark? |
2840 |
251 |
In silico identification of off-target pesticidal dsRNA binding in honey bees (Apis mellifera) |
2808 |
86 |
The Tao of Open Science for Ecology |
2762 |
860 |
How R helps Airbnb make the most of its data |
2735 |
13178 |
Characterization of RNA in exosomes secreted by human breast cancer cell lines using next-generation sequencing |
2731 |
1022 |
A linear sigmoid colon passage method by left twisting |
2727 |
315 |
The furculae of the dromaeosaurid dinosaur Dakotaraptor steini are trionychid turtle entoplastra |
2720 |
1091 |
True´s beaked whale (Mesoplodon mirus) in Macaronesia |
2709 |
339 |
GenGIS 2: Geospatial analysis of traditional and genetic biodiversity, with new gradient algorithms and an extensible plugin framework |
2693 |
664 |
GroopM: An automated tool for the recovery of population genomes from related metagenomes |
2681 |
829 |
Sequencing at sea: Challenges and experiences in Ion Torrent PGM sequencing during the 2013 Southern Line Islands Research Expedition |
2660 |
368 |
Ten simple rules for considering preprints |
2642 |
438 |
Anvi’o: An advanced analysis and visualization platform for ‘omics data |
2616 |
1626 |
Teaching stats for data science |
2616 |
719 |
Tiling the genome into consistently named subsequences enables precision medicine and machine learning with millions of complex individual data-sets |
2615 |
603 |
A mathematical theory of knowledge, science, bias and pseudoscience |
2598 |
638 |
mockrobiota: a public resource for microbiome bioinformatics benchmarking |
2582 |
333 |
A standardized, extensible framework for optimizing classification improves marker-gene taxonomic assignments |
2570 |
1065 |
Wrangling categorical data in R |
2534 |
829 |
Packaging data analytical work reproducibly using R (and friends) |
2513 |
712 |
A linear sigmoid colon passage method in colonoscopy |
2507 |
704 |
Consistent, comprehensive and computationally efficient OTU definitions |
2501 |
1128 |
Counterinsurgency Doctrine Applied to Infectious Disease |
2498 |
1391 |
Relative toxicity of herbicide use in the United States 1990 to 2015 |
2489 |
383 |
Sympathy for the devil: a conservation strategy for devil and manta rays |
2483 |
808 |
A world of opportunities with nanopore sequencing |
2477 |
1395 |
BALSA: Integrated secondary analysis for whole-genome and whole-exome sequencing, accelerated by GPU |
2466 |
810 |
Spider phylogenomics: untangling the Spider Tree of Life |
2451 |
793 |
Can editors save peer review from peer reviewers? |
2418 |
235 |
Why respiratory viruses or bacteria have the highest probability to be deposited in the respiratory tract in flu seasons |
2390 |
228 |
Were the necks of Apatosaurus and Brontosaurus adapted for combat? |
2383 |
258 |
LecoS - A QGIS plugin for automated landscape ecology analysis |
2361 |
5597 |
An effective rectal administration method in the left semiprone position |
2360 |
158 |
Zeta potential of bacterial cells: Effect of wash buffers |
2336 |
1228 |
Reevaluation of the largest published morphological data matrix for phylogenetic analysis of Paleozoic limbed vertebrates |
2310 |
793 |
Geometric morphometric analysis of snout shape in extant ruminants (Ungulata, Artiodactyla) |
2265 |
606 |
Software Citation Principles |
2259 |
388 |
Angiosperm Phylogeny Group (APG) in jeopardy – Where have the flowers gone? |
2249 |
3541 |
Formalized synthesis opportunities for ecology: systematic reviews and meta-analyses |
2241 |
505 |
Women are underrepresented on the editorial boards of journals in environmental biology and natural resource management |
2241 |
240 |
The Chinese colossus: an evaluation of the phylogeny of Ruyangosaurus giganteus and its implications for titanosaur evolution |
2236 |
514 |
The fragile legacy of Amphicoelias fragillimus (Dinosauria: Sauropoda; Morrison Formation - Latest Jurassic) |
2234 |
2301 |
ANGSD-wrapper: utilities for analyzing next generation sequencing data |
2203 |
841 |
Enzyme characterisation and kinetic modelling of the pentose phosphate pathway in yeast |
2185 |
1625 |
A macroecological theory of microbial biodiversity |
2175 |
890 |
What’s for dinner?: Undescribed species of porcini in a commercial packet |
2165 |
710 |
Harmine stimulates neurogenesis of human neural cells in vitro |
2143 |
782 |
rotl, an R package to interact with the Open Tree of Life data |
2142 |
478 |
Signatures of rapid evolution in urban and rural transcriptomes of white-footed mice (Peromyscus leucopus) in the New York metropolitan area |
2137 |
605 |
On the relationship between native grouper and invasive lionfish in the Caribbean |
2122 |
2132 |
Zika virus: A newly emergent vector-borne public health threat in the Americas |
2111 |
634 |
BioNames: linking taxonomy, texts, and trees |
2041 |
450 |
A preliminary case study of the effect of shoe-wearing on the biomechanics of a horse’s foot |
2034 |
423 |
The science behind Smarter Lunchrooms |
2033 |
393 |
A survey of secure middleware for the Internet of Things |
2028 |
3528 |
A method for simultaneous measurement of soil bacterial abundances and community composition via 16S rRNA gene sequencing |
2026 |
1532 |
DICOM for quantitative imaging biomarker development: A standards based approach to sharing clinical data and structured PET/CT analysis results in head and neck cancer research |
2019 |
328 |
How to critically read ecological meta-analyses. |
2010 |
1238 |
OncoLnc: Linking TCGA survival data to mRNAs, miRNAs, and lncRNAs |
2008 |
323 |
Treating patients with compounds or biological agents that pass the safety-test |
1993 |
75 |
Extending R with C++: A Brief Introduction to Rcpp |
1984 |
674 |
The Shape of Color: Retinal Cones and Spectral Dispersion |
1982 |
477 |
Evidence points out that "Nanotyrannus" is a juvenile Tyrannosaurus rex |
1966 |
957 |
Setting the record straight on invasive lionfish control: Culling works |
1964 |
1290 |
Good Practice for Conference Abstracts and Presentations: GP-CAP |
1962 |
893 |
Hotspot analysis: a first prototype Python plugin enabling exploratory spatial data analysis into QGIS |
1952 |
593 |
Male aggressiveness as intrasexual contest competition in 78 societies. |
1950 |
175 |
SUPERSMART: ecology and evolution in the era of big data |
1947 |
937 |
Multitrophic functional diversity predicts ecosystem functioning in experimental assemblages of estuarine consumers |
1918 |
1544 |
Minimum soil nutrient guidelines for turfgrass developed from Mehlich 3 soil test results |
1905 |
653 |
The enveomics collection: a toolbox for specialized analyses of microbial genomes and metagenomes |
1899 |
571 |
Reef growth and limestone erosion |
1876 |
196 |
New insights into the lifestyle of Allosaurus (Dinosauria: Theropoda) based on another specimen with multiple pathologies |
1834 |
508 |
SymPy: Symbolic computing in Python |
1831 |
1126 |
Coral reef baselines: how much macroalgae is natural? |
1824 |
994 |
A genetic manipulation of motor neuron excitability does not alter locomotor output in Drosophila larvae |
1817 |
544 |
CauseMap: Fast inference of causality from complex time series |
1813 |
889 |
What do programmers know about the energy consumption of software? |
1813 |
791 |
Common mistakes in data presentation and statistical analysis: how can the BioStat Decision Tool help? |
1801 |
1876 |
Morphological evidence supports Dryolestoid affinities for the living Australian marsupial mole Notoryctes |
1764 |
1199 |
Quantifying the effect of intervertebral cartilage on neutral posture in the necks of sauropod dinosaurs |
1758 |
380 |
The pupillary light response reflects exogenous attention and inhibition of return |
1756 |
2059 |
A review of KDD99 dataset usage in intrusion detection and machine learning between 2010 and 2015 |
1740 |
2346 |
Interoperability and FAIRness through a novel combination of Web technologies |
1735 |
321 |
Non invasive analysis of metabolic changes following nutrient input into diverse fish species, as investigated by metabolic and microbial profiling approaches |
1730 |
192 |
Oops, my tests broke the build: An analysis of Travis CI builds with GitHub |
1720 |
2191 |
Restore: An R of sustainability that can tame the “conundrum” |
1710 |
377 |
Randomised Badger Culling Trial: Impact, based on more extensive data |
1704 |
295 |
Whale shark (Rhincodon typus) behavior: A multi-year analysis of individuals at Georgia Aquarium |
1703 |
170 |
Conducting perception research over the Internet: a tutorial review |
1692 |
447 |
Almost all known sauropod necks are incomplete and distorted |
1689 |
578 |
Accelerating the XGBoost algorithm using GPU computing |
1687 |
749 |
Genome-wide analyses reveal clustering in Cannabis cultivars: the ancient domestication trilogy of a panacea |
1685 |
518 |
Ghost-tree: creating hybrid-gene phylogenetic trees for diversity analyses |
1674 |
460 |
Runtime metric meets developer - Building better cloud applications using feedback |
1671 |
1739 |
MetaCRAST: Reference-guided extraction of CRISPR spacers from unassembled metagenomes |
1655 |
281 |
The tolerability of transcranial electrical stimulation used across extended periods in a naturalistic context by healthy individuals |
1651 |
1916 |
Lessons from between the white lines for isolated data scientists |
1644 |
420 |
Formatting Open Science: agilely creating multiple document formats for academic manuscripts with Pandoc Scholar |
1629 |
325 |
Diversity is the question, not the answer |
1627 |
359 |
Paleontology of the Bears Ears National Monument: history of exploration and designation of the monument |
1615 |
276 |
A call for virtual experiments: accelerating the scientific process |
1614 |
387 |
Preventing Zika virus infection during pregnancy by timing conception seasonally |
1613 |
477 |
Advances and limits of using population genetics to understand local adaptation |
1599 |
2475 |
A framework for smartphone-enabled, patient-generated health data analysis |
1596 |
169 |
Marine biodiversity and ecosystem functioning: what’s known and what’s next? |
1571 |
1358 |
Magic Strategies: the basic biology of multilevel, multiscale, health promotion |
1571 |
744 |
Journal title abbreviations should be eliminated in the digital age |
1570 |
716 |
Predicting trophic discrimination factor using Bayesian inference and phylogenetic, ecological and physiological data. DEsIR: Discrimination Estimation in R. |
1554 |
399 |
Distributions of p-values smaller than .05 in Psychology: What is going on? |
1538 |
592 |
When is an ecological network complex? Connectance drives degree distribution and emerging network properties |
1538 |
535 |
Overload injuries in barefoot/minimal footwear running: evidence from crowd sourcing |
1536 |
1145 |
Cancer as a script and possible implications on workings of genome |
1530 |
398 |
Self-generated morphology in lagoon reefs |
1528 |
250 |
If funders and libraries subscribed to open access: The case of eLife, PLOS, and BioOne |
1519 |
597 |
Sorting things out - assessing effects of unequal specimen biomass on DNA metabarcoding |
1519 |
387 |
Culture-independent detection and characterisation of Mycobacterium tuberculosis and M. africanum in sputum samples using shotgun metagenomics on a benchtop sequencer |
1519 |
378 |
DNA methylation marks inter-nucleosome linker regions throughout the human genome |
1517 |
786 |
The man-machine integration era |
1502 |
298 |
Development of a semi-defined medium for high cell density cultivation of Escherichia coli in shake flasks: Part 1 |
1497 |
356 |
A scaled-down workflow for Illumina shotgun sequencing library preparation: lower input and improved performance at small fraction of the cost |
1494 |
472 |
Ethylene induces soil microbes to delay fruit ripening |
1491 |
850 |
By-catch in a recreational fishery: an unmonitored source of mortality. |
1486 |
313 |
Evaluating a lightweight transcriptome assembly pipeline on two closely related ascidian species |
1479 |
837 |
Redescription of Arundel formation Ornithomimosaur material and a reinterpretation of Nedcolbertia justinhofmanni as an “Ostrich Dinosaur”: Biogeographic implications |
1475 |
384 |
Free flow of sweat due to loss of surface tension at sweat droplets causes water-induced skin wrinkling |
1463 |
1235 |
Assessing strengths and weaknesses of DNA metabarcoding based macroinvertebrate identification for routine stream monitoring |
1458 |
576 |
Can DNA-based ecosystem assessments quantify species abundance? Testing primer bias and biomass - sequence relationships with an innovative metabarcoding protocol |
1455 |
719 |
Defending scientific integrity in conservation policy processes: lessons from Canada, Australia, and the United States |
1443 |
101 |