KMC 2: fast and resource-frugal k-mer counting

KAnalyze: a fast versatile pipelined K-mer toolkit

(2014) Peter Audano et al.   BIOINFORMATICS

Turtle: Identifying frequent k -mers with cache-efficient algorithms

(2014) Rajat Shuvro Roy et al.   BIOINFORMATICS

Kraken: ultrafast metagenomic sequence classification using exact alignments

(2014) Derrick E Wood et al.   GENOME BIOLOGY

pfsearchV3: a code acceleration and heuristic to search PROSITE profiles

(2013) T. Schuepbach et al.   BIOINFORMATICS

DSK: k-mer counting with very low memory usage

(2013) G. Rizk et al.   BIOINFORMATICS

Disk-based k-mer counting on a PC

(2013) Sebastian Deorowicz et al.   BMC BIOINFORMATICS

Quake: quality-aware detection and correction of sequencing errors

(2012) David R Kelley et al.   GENOME BIOLOGY

A fast, lock-free approach for efficient parallel counting of occurrences of k-mers

(2011) Guillaume Marçais et al.   BIOINFORMATICS

Efficient counting of k-mers in DNA sequences using a bloom filter

(2011) Páll Melsted et al.   BMC BIOINFORMATICS

A new method to compute K-mer frequencies and its application to annotate large repetitive plant genomes

(2009) Stefan Kurtz et al.   BMC GENOMICS