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eDNAfuns  

Working with Metabarcoding Data in a Tidy Format
View on CRAN: Click here


Download and install eDNAfuns package within the R console
Install from CRAN:
install.packages("eDNAfuns")

Install from Github:
library("remotes")
install_github("cran/eDNAfuns")

Install by package version:
library("remotes")
install_version("eDNAfuns", "0.1.0")



Attach the package and use:
library("eDNAfuns")
Maintained by
Ramón Gallego Simón
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2025-10-01
Latest Update: 2025-10-01
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.
How to cite:
Ramón Gallego Simón (2025). eDNAfuns: Working with Metabarcoding Data in a Tidy Format. R package version 0.1.0, https://cran.r-project.org/web/packages/eDNAfuns. Accessed 24 Oct. 2026.
Previous versions and publish date:
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Complete documentation for eDNAfuns
Functions, R codes and Examples using the eDNAfuns R package
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