Slacken paper published in NAR Genomics and Bioinformatics
Our paper on Slacken, a metagenomic classifier based on the Kraken 2 method, was recently published in NAR Genomics and Bioinformatics. In this post I (Johan...
News
2025
Slacken: a super-scalable implementation of the Kraken 2 algorithm
In metagenomics, a key problem in the analysis of NGS data is taxonomic binning: assigning genomic fragments to the taxon that they originated from, classify...
2023
K-mer indexes with Discount 3.0.0
We are proud to announce version 3.0 of our Spark-based k-mer counter Discount.
2022
Towards petabyte-scale k-mer counting: Genome Informatics 2022 poster
At Genome Informatics 2022, we presented a poster where we analyse how Discount might be scaled up to petabyte-scale k-mer counting.
Taxonomic classification with huge libraries: Kraken 2 for Spark
We are proud to announce the availability of a new terabyte-scale implementation of the Kraken 2 (and Kraken 1) metagenomic classification tool.
Discount 2.3.0 released
Version 2.3.0 of our Discount k-mer counter has been released. This version contains several new key features, including a “pregrouped” pipeline that enable...
Analysing a 6 TB planetary transcriptome with Spark
Recently, the Serratus dataset (Nature paper) was released by Robert C. Edgar et al. Serratus is a collection of transcriptomic (RNA) assemblies data-mined f...
Discount 2.2.1
Version 2.2.1 of our k-mer counter Discount fixes a bug in fastq parsing.