Welcome to the REFRESH Bioinformatics Group

We are a group of researchers developing various tools for bioinformatics data analysis and processing. Our aim is to tackle complex bioinformatics problems that require a lot of resources (time, memory) and design algorithms (as well as implement them) as efficent as possible (in terms of results quality, time, and memory requirements). Our most popular tools are: KMC (k-mer counter), FAMSA (multiple sequence alignment of proteins for huge datasets), CoLoRd (cutting-edge compressor for 3rd generation sequencing data), Kmer-db (k-mer-based tools for large-scale analyses of nucleotide datasets), AGC (compressor of collections of assembled genomes).

We are a part of the Department of Algorithms and Software of Silesian University of Technology, Gliwice, Poland. Nevertheless, some of our tools were prepared in close collaboration with researchers from various universities.


2 Mar 2023

Paper describing AGC, our compressor of genome collections is published in Bioinformatics.

23 Dec 2022

AGC 3.0 (major revision) is published.

8 Sep 2022

Paper describing Cuttlefish 2 is published in Genome Biology.

11 Aug 2022

FAMSA 2.1.2 (minor revision) is published.

19 May 2022

FAMSA 2.0.1 with a lot of new features is published.

9 May 2022

AGC 2.1 (bugfix release) is published.

7 Apr 2022

Preprint describing AGC (Assembled Genome Compressor) is available.

5 Apr 2022

AGC 2.0 is published.

28 Mar 2022

Paper desciring our 3rd gen sequencing data compressor is published in Nature Methods.

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