Algorithm for ultra-scale multiple sequence alignments (3M protein sequences in 5 minutes and 24 GB of RAM)
Fast and accurate tool for calculating Average Nucleotide Identity (ANI) and clustering virus genomes and metagenomes
Kmer-db is a fast and memory-efficient tool for large-scale k-mer analyses (indexing, querying, estimating evolutionary relationships, etc.).
Fast and accurate tool for calculating Average Nucleotide Identity (ANI) among virus and bacteria genomes
Database-Integrated Genome Screening (DIGS) tool. Explore the dark genome using BLAST and a relational database.
(Semester 4) Intelligence of Biological Systems - End Semester Project
Per-taxonomy BLASTP search tool for balanced sequence retrieval from NCBI
Phases ancestry blocks in allopolyploid genomes with k-mer, SNP, and autoencoder methods in one modular toolkit
Graph-based methods for detecting horizontal gene transfer (HGT) candidates in bacterial proteomes using sequence similarity and network analysis, developed for HUJI’s Algorithms in Computational Biology course (76558)
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