This repository contains 142 tar.gz archive files, each containing nucleotide sequence data that have been simulated using INDELible for testing alignment-free phylogenetic inference methods. These datasets were generated by using the results (trees and model parameters) of 142 phylogenomic analyses of real-case data as model (available here). Initial sequence length was 5 Mbs, and an indel rate of 0.01 was set with indel length drawn from [1, 50000] according to a Zipf distribution with parameter 1.5 (see INDELible manual). Each archive contains the following files/directories: GTR.params.trees.tsv a tab-delimited file summarizing the real-case GTR+Γ model parameters and the phylogenetic tree used to simulate the sequence dataset (gathered from https://zenodo.org/record/4034261) tax.tsv a tab-delimited file containing the initial (col 1) and simplified (col 2) taxon names model.nwk a Newick-formatted file containing the initial model tree (gathered from GTR.params.trees.tsv) with simplified leaf names (following tax.tsv) control.txt the INDELible input file used to simulate the evolution of a sequence along the tree in model.nwk seq/ a directory containing the simulated sequences (one FASTA file per leaf in the tree in model.nwk) ___ Criscuolo A (2020) On the transformation of MinHash-based uncorrected distances into proper evolutionary distances for phylogenetic inference. F1000Research, 9:1309. doi:10.12688/f1000research.26930.1