Suggests: knitr, testthat (>= 2.1.0), rmarkdown, formatR

Suggests: knitr, markdown, testthat (>= 2.1.0), rmarkdown, formatR

Description: Contains an engine for spatially-explicit eco-evolutionary mechanistic models with a modular implementation and several support functions. It allows exploring the consequences of ecological and macroevolutionary processes across realistic or theoretical spatio-temporal landscapes on biodiversity patterns as a general term. Reference: Oskar Hagen, Benjamin Flueck, Fabian Fopp, Juliano S. Cabral, Florian Hartig, Mikael Pontarp, Thiago F. Rangel, Loic Pellissier (2021) "gen3sis: A general engine for eco-evolutionary simulations of the processes that shape Earth's biodiversity" <doi:10.1371/journal.pbio.3001340>.

Title: Processing 'Gen5' 2.06 Exported Data
Authors@R: person("Yanxian", "Lin", email = "yanxian00@gmail.com",
Description: A collection of functions for processing 'Gen5' 2.06 exported data.
'Gen5' is an essential data analysis software for BioTek plate readers <https://www.biotek.com/products/software-robotics-software/gen5-microplate-reader-and-imager-software/>. This package contains functions for data cleaning,
modeling and plotting using exported data from 'Gen5' version 2.06. It exports
technically correct data defined in (Edwin de Jonge and Mark van der Loo
(2013) <https://cran.r-project.org/doc/contrib/de_Jonge+van_der_Loo-Introduction_to_data_cleaning_with_R.pdf>) for customized analysis. It
contains Boltzmann fitting for general kinetic analysis.
See <https://www.github.com/yanxianUCSB/gen5helper> for more information,
Imports: ggplot2, minpack.lm, plyr, pracma, tidyr, stats, naturalsort,

Title: Analysis and Visualization Tools for Genetic Barcode Data
Description: Provides the necessary functions to identify and extract a selection of already available barcode constructs (Cornils, K. et al. (2014) <doi:10.1093/nar/gku081>) and freely choosable barcode designs from next generation sequence (NGS) data. Furthermore, it offers the possibility to account for sequence errors, the calculation of barcode similarities and provides a variety of visualisation tools (Thielecke, L. et al. (2017) <doi:10.1038/srep43249>).
Imports: methods, Biostrings, RColorBrewer, ShortRead, ape, ggnetwork,
ggplot2, igraph, network, phangorn, stringdist, visNetwork,