Hugo Gruson

Hugo Gruson

7 packages on CRAN

asymptor

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Estimate the lower and upper bound of asymptomatic cases in an epidemic using the capture/recapture methods from B<c3><b6>hning et al. (2020) <doi:10.1016/j.ijid.2020.06.009> and Rocchetti et al. (2020) <doi:10.1101/2020.07.14.20153445>.

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Data package for the supplementary data in Prem et al. (2017) <doi:10.1371/journal.pcbi.1005697>. Provides easy access to contact data for 152 countries, for use in epidemiological, demographic or social sciences research.

lightr

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Parse various reflectance/transmittance/absorbance spectra file formats to extract spectral data and metadata, as described in Gruson, White & Maia (2019) <doi:10.21105/joss.01857>. Among other formats, it can import files from 'Avantes' <https://www.avantes.com/>, 'CRAIC' <http://www.microspectra.com/>, and 'OceanInsight' (formerly 'OceanOptics') <https://www.oceaninsight.com/> brands.

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Provides ensemble samplers for affine-invariant Monte Carlo Markov Chain, which allow a faster convergence for badly scaled estimation problems. Two samplers are proposed: the 'differential.evolution' sampler from ter Braak and Vrugt (2008) <doi:10.1007/s11222-008-9104-9> and the 'stretch' sampler from Goodman and Weare (2010) <doi:10.2140/camcos.2010.5.65>.

pavo

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A cohesive framework for parsing, analyzing and organizing colour from spectral data.

rromeo

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Fetches information from the 'SHERPA/RoMEO' API <http://www.sherpa.ac.uk/romeo/apimanual.php> which indexes policies of journal regarding the archival of scientific manuscripts before and/or after peer-review as well as formatted manuscripts.

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An implementation that combines trait data and a phylogenetic tree (or trees) into a single object of class treedata.table. The resulting object can be easily manipulated to simultaneously change the trait- and tree-level sampling. Currently implemented functions allow users to use a 'data.table' syntax when performing operations on the trait dataset within the treedata.table object.