Mile Sikic

Edlib: A C/C++ library for fast, exact sequence alignment using edit distance

Edlib is a fast, exact sequence alignment library using edit distance, outperforming other tools in speed without sacrificing functionality.

Fast and accurate de novo genome assembly from long uncorrected reads

This paper demonstrates that high-quality genome assemblies can be generated from long uncorrected reads using Racon, which is faster than existing methods.

Evaluation of hybrid and non-hybrid methods for de novo assembly of nanopore reads

The paper evaluates hybrid and non-hybrid de novo assembly methods for nanopore reads, finding hybrid methods perform better at lower coverage and non-hybrid methods succeed at higher coverage.

Fast and sensitive mapping of error-prone nanopore sequencing reads with GraphMap

GraphMap improves nanopore sequencing read mapping with high sensitivity and precision, outperforming existing tools in variant and structural variant detection.

SW#db: GPU-accelerated exact sequence similarity database search

The paper introduces SW#db, a GPU-accelerated tool for exact protein sequence similarity search, showing faster performance than existing methods on specific tasks.