3 papers
q-bio.QM2025
Blini: lightweight nucleotide sequence search and dereplication
Amit Lavon
Blini is a tool for quick lookup of nucleotide sequences in databases, and for quick dereplication of sequence collections. It is meant to help clean and characterize large collect…
q-bio.QM2025
Izzy: a high-throughput metagenomic read simulator
Amit Lavon
Simulated microbial communities are used in benchmarking microbial abundance estimators and other bioinformatic utilities. To match current data scales, large simulated samples are…
q-bio.QM2024
FrackyFrac: A Standalone UniFrac Calculator
Amit Lavon, Smadar Shilo, Ayya Keshet +1
UniFrac is a family of distance metrics over microbial abundances, that take taxonomic relatedness into account. Current tools and libraries for calculating UniFrac have specific r…