Megalodon is a research command line tool to extract high accuracy modified base and sequence variant calls from raw nanopore reads by anchoring the information rich basecalling neural network output to a reference genome/transriptome.

iOS pod about a curious fish named Guppy

A small bash script that automates sweeping Guppy parameters in an attempt to optimise basecalling rate

Python client library for Guppy

modPhred is a pipeline for detection of DNA/RNA modifications from raw ONT data

Splitting and accelerating the Oxford Nanopore basecaller guppy using CPU with the SLURM job scheduler

Scripts for Lin, Y., Darolti, I., Furman, B. L. F., Almeida, P., Sandkam, B. A., et al., Breden, F., Wright, A. E., Mank, J. E. (2022) Gene duplication to the Y chromosome in Trinidadian Guppies. Molecular Ecology. https://doi.org/10.1111/mec.16355

Scripts for Lin, Y., Darolti, I., van der Bijl, W., Morris, J., Mank, J. E. (2023) Extensive variation in germline de novo mutations in Poecilia reticulata. Genome Research

Data, script, and output used for the guppy QTL project by Nathan Phipps and Dr. Laura Stein, starting from 5/1/2020.

Data, script, and outputs for the guppy courtship behavior chapter of Nathan Phipps' M.S. thesis project (An extension of Laura Stein's guppy intercross project.) Study conducted at Colorado State University with funding from the National Science Foundation.