Nextclade
Nextclade: clade assignment, mutation calling and quality control for viral genomes - Published in JOSS (2021)
JavaPermutationTools
JavaPermutationTools: A Java Library of Permutation Distance Metrics - Published in JOSS (2018)
code2seq
Code for the model presented in the paper: "code2seq: Generating Sequences from Structured Representations of Code"
Structstrings
:package: Structstrings: implementation of Biostrings to work with dot bracket annotations
https://github.com/cicirello/jpt-examples
Example programs for the JavaPermutationTools (JPT) library
math-base-special-lucasf
Compute the nth Lucas number as a single-precision floating-point number.
https://github.com/biocommons/uta
Universal Transcript Archive: comprehensive genome-transcript alignments; multiple transcript sources, versions, and alignment methods; available as a docker image
https://github.com/biocommons/mirrors-ncbi
Makefile (of all things) to space-efficiently mirror selected NCBI resources