alignment-free topic
smashpp
Find and visualize rearrangements in DNA sequences
andi
♥ Efficient Estimation of Evolutionary Distances
Skmer
Fast and accurate tool for estimating genomic distances between genome-skims
phylonium
♥ Fast and Accurate Estimation of Evolutionary Distances
falcon
A tool to infer metagenomic sample composition
shark
Mapping-free software for fishing relevant reads in an RNA-Seq sample
geometricus
A structure-based, alignment-free embedding approach for proteins. Can be used as input to machine learning algorithms.
DeepFam
Deep learning based alignment-free method for protein family modeling and prediction