REFRESH Bioinformatics Group

News

2017-05-04

Paper describing KMC 3 was published in Bioinformatics.

2015-09-11

Version 2.3 of KMC is available.

Main changes:

  • New package, KMC tools, was released. It supports various types of operations on databases od k-mers, e.g. set operations, filtering.
  • KMC is now able to count also k-mers for small k.
  • KMC API was extened in several ways, e.g., a new method for collect counts of all k-mers in a read was added.
  • Fixed some small bug in API (for long k-mers).

2015-04-16

Version 2.2 of KMC is available.

Main changes:

  • KMC 2 API now supports databases construted with KMC 1.x and KMC 2.x.
  • Fixed some small bug in API (for long k-mers).

2015-01-23

Version 2.1.1 of KMC is available.

Main changes:

  • Small bug fixes.

2015-01-20

Paper describing KMC 2 was published in Bioinformatics.

2014-12-18

Version 2.1 of KMC is available.

Main changes:

  • Added a memory-limited mode in which KMC can collect k-mer statistics in 4 GB of RAM for huge datasets with only moderate slowdown.

2014-07-07

Version 2.0 of KMC is available.

Main changes:

  • Completely new algorithm based on the ideas of signatures (generalization of minimizers) and (k, x)-mers.
  • About twice faster than KMC 1.
  • Up to 10 times less disk usage than KMC 1.
  • Less less RAM usage than KMC 1.

2014-05-16

Paper describing KMC was published in BMC Bioinformatics.

2014-03-28

Version 1.0 of KMC is available.

Main changes:

  • Support for multiline FASTA files (e.g., complete genomes, chromosomes).
  • Support for counting reads containing k-mers (i.e., when more than 1 occurrence of k-mer is in a read, it is counted only once).
  • Fixed small bugs.

2012-11-29

Version 0.3 of KMC is available.

2012-01-26

Version 0.1 of KMC is available.