baitfindR is an R package that extends the Yang and Smith orthology inference pipeline (2014 Mol. Biol. Evol. 31:3081-3092) to find appropriate loci for use as baits in sequence capture.
Dependencies
Most functions are wrappers for other external (to R) programs, so these must be installed and on the users’ PATH. baitfindR requires all of the dependencies for the Yang & Smith workflow.
Docker image
A docker image is available that includes the latest version of baitfindR and all required, properly versioned dependencies.
Examples
baitfindR works best in conjunction with drake to manage a bait-finding workflow. Please see the example project.
