Package: eDNAfuns
Type: Package
Title: Working with Metabarcoding Data in a Tidy Format
Version: 0.1.0
Authors@R: person(given = "Ramón",
                family= c("Gallego Simón"),
                role= c("aut","cre"),
                email= "ramongallego@gmail.com")
Description: A series of R functions that come in handy while working
        with metabarcoding data. The reasoning of doing this is to have
        the same functions we use all the time stored in a curated,
        reproducible way. In a way it is all about putting together the
        grammar of the 'tidyverse' from Wickham et al.(2019)
        <doi:10.21105/joss.01686> with the functions we have used in
        community ecology compiled in packages like 'vegan' from Dixon
        (2003) <doi:10.1111/j.1654-1103.2003.tb02228.x> and 'phyloseq'
        McMurdie & Holmes (2013) <doi:10.1371/journal.pone.0061217>.
        The package includes functions to read sequences from FAST(A/Q)
        into a tibble ('fasta_reader' and 'fastq_reader'), to process
        'cutadapt' Martin (2011) <doi:10.14806/ej.17.1.200> 'info-file'
        output. When it comes to sequence counts across samples, the
        package works with the long format in mind (a three column
        'tibble' with Sample, Sequence and counts ), with functions to
        move from there to the wider format.
License: GPL (>= 3)
Encoding: UTF-8
LazyData: true
Suggests: insect, testthat, tidyverse, knitr, rmarkdown
Imports: dplyr, googlesheets4, phyloseq, purrr, rlang, tibble, tidyr,
        vegan, ggplot2, vroom, Biostrings, stringr, tidyselect, readr
Depends: R (>= 4.1.0)
RoxygenNote: 7.3.2
NeedsCompilation: no
Packaged: 2026-07-02 07:15:40 UTC; root
Author: Ramón Gallego Simón [aut, cre]
Maintainer: Ramón Gallego Simón <ramongallego@gmail.com>
Config/pak/sysreqs: cmake libglpk-dev make libicu-dev libuv1-dev
        libxml2-dev libssl-dev libx11-dev zlib1g-dev
Repository: https://ramongallego.r-universe.dev
Date/Publication: 2025-10-01 07:00:09 UTC
RemoteUrl: https://github.com/cran/eDNAfuns
RemoteRef: HEAD
RemoteSha: d56354ab3cb233850f64f9ff5cb3b81bbede0f73