README.md

In fmichonneau/chopper: Alignment Manipulations and Data Preparation for Phylogenetic Analyses

chopper

This package (formerly known as seqManagement) is a collection of tools to help manipulate and format alignment files to be used for phylogenetic and population genetics analyses. Overall, it is intended to faciliate reproducible analyses by generating input files (alignment, partitions, ...) in ways that can be scripted.

Feedback, comments, bug reports are welcome and encouraged!

Installation

This is an alpha, pre-release, package not available on CRAN. Function names can change, and there might be some bugs. To install it, you need to get it from here (GitHub). This is under heavy development, so use at your own risks.

Please note that this package may not work very well on Windows. It is developed and tested on Linux, and probably works on Mac.

To make things easier, use the install_github() function from the devtools package.

install.packages("devtools")
library(devtools)
install_github("fmichonneau/chopper")

More details soon. In the meantime, feel free to open an issue if you have any questions.

fmichonneau/chopper documentation built on May 16, 2019, 1:43 p.m.