Sequence_Cleaner: Remove Duplicate Sequences, Short Sequences, etc

An R package to hold and facilitate interaction with natural earth map data 🌍

Influenza data pipeline to automate genotyping assignment

Phylogenetic maximum representation sampling: choosing most representative strains or taxa

geNomad: Identification of mobile genetic elements

Microbiome classification pipeline

Influenza virus DVG detection tools

quantitative PCR analysis in the tidyverse

BWK awk modified for biological data

flu utilities

Tutorials on phylogenetic and phylogenomic inference

Script that labels phylogenetic clades based on the clade of the nearest neighbor using patristic distances determined from the tree.

RECDS identifies cluster-transition determining sites underlying the antigenic evolution of seasonal influenza viruses

R package of functions linking R to the threejs 3D plotting engine

Browser-based utility for phylogenetic tree visualisation.

Integrating influenza antigenic dynamics with molecular evolution

PREQUAL: a pre-alignment quality filter for comparative sequence analyses

Tools for manipulating sequencing data, multiple sequence alignments and phylogenetic trees

Python package for mapping epitopes to sequences

converts among numbering schemes for influenza hemagglutinin

Software for inferring protein stabilities from phylogenies

Course Materials for Tools for Computational Biology Fall 2018