10.1093/bioinformatics/btq461
10.1093/bioinformatics/btq461 · doi-reference
10.1093/bioinformatics/btr595
10.1093/bioinformatics/btr595 · doi-reference
A poor man’s BLASTX--high-throughput metagenomic protein database search using PAUDA.
10.1093/bioinformatics/btt254 · doi-reference
10.1371/journal.pcbi.1004985
10.1371/journal.pcbi.1004985 · doi-reference
The number of k-mer matches between two DNA sequences as a function of k and applications to estimate phylogenetic distances
10.1371/journal.pone.0228070 · doi-reference
Skmer: assembly-free and alignment-free sample identification using genome skims
10.1186/s13059-019-1632-4 · doi-reference
10.1038/nmeth976
10.1038/nmeth976 · doi-reference
Fast and accurate phylogeny reconstruction using filtered spaced-word matches
10.1093/bioinformatics/btw776 · doi-reference
10.1111/1755-0998.12921
10.1111/1755-0998.12921 · doi-reference
WGSQuikr: fast whole-genome shotgun metagenomic classification
10.1371/journal.pone.0091784 · doi-reference
TETRA: a web-service and a stand-alone program for the analysis and comparison of tetranucleotide usage patterns in DNA sequences
10.1186/1471-2105-5-163 · doi-reference
TACOA: taxonomic classification of environmental genomic fragments using a kernelized nearest neighbor approach
10.1186/1471-2105-10-56 · doi-reference
StrainSeeker: fast identification of bacterial strains from raw sequencing reads using user-provided guide trees
10.7717/peerj.3353 · doi-reference
10.1093/bioinformatics/btu320
10.1093/bioinformatics/btu320 · doi-reference
MetaPalette: a -mer painting approach for metagenomic taxonomic profiling and quantification of novel strain variation
10.1128/msystems.00020-16 · doi-reference
10.1093/bioinformatics/btx520
10.1093/bioinformatics/btx520 · doi-reference
Matchtigs: minimum plain text representation of k-mer sets
10.1186/s13059-023-02968-z · doi-reference
10.1093/bioinformatics/btt389
10.1093/bioinformatics/btt389 · doi-reference
Rapid whole-genome sequencing for detection and characterization of microorganisms directly from clinical samples
10.1128/jcm.02452-13 · doi-reference
KMCP: accurate metagenomic profiling of both prokaryotic and viral populations by pseudo-mapping
10.1093/bioinformatics/btac845 · doi-reference
Genometa--a fast and accurate classifier for short metagenomic shotgun reads
10.1371/journal.pone.0041224 · doi-reference
CLARK: fast and accurate classification of metagenomic and genomic sequences using discriminative k-mers
10.1186/s12864-015-1419-2 · doi-reference
CDKAM: a taxonomic classification tool using discriminative k-mers and approximate matching strategies
10.1186/s12859-020-03777-y · doi-reference
10.7717/peerj-cs.104
10.7717/peerj-cs.104 · doi-reference
10.1371/journal.pone.0140644
10.1371/journal.pone.0140644 · doi-reference
10.1016/j.cell.2019.07.010
10.1016/j.cell.2019.07.010 · doi-reference
An evaluation of the accuracy and speed of metagenome analysis tools
10.1038/srep19233 · doi-reference
iMOKA: k-mer based software to analyze large collections of sequencing data
10.1186/s13059-020-02165-2 · doi-reference
10.1093/bioinformatics/btv506
10.1093/bioinformatics/btv506 · doi-reference
10.1093/bioinformatics/btp698
10.1093/bioinformatics/btp698 · doi-reference
10.1093/bioinformatics/btp324
10.1093/bioinformatics/btp324 · doi-reference
10.1038/nmeth.1923
10.1038/nmeth.1923 · doi-reference
Estimating evolutionary distances between genomic sequences from spaced-word matches
10.1186/s13015-015-0032-x · doi-reference
10.1186/s13059-018-1540-z
10.1186/s13059-018-1540-z · doi-reference
10.1093/bioinformatics/bty266
10.1093/bioinformatics/bty266 · doi-reference
10.1093/bioinformatics/btv033
10.1093/bioinformatics/btv033 · doi-reference
10.1038/ng.1028
10.1038/ng.1028 · doi-reference
10.1101/gr.215087.116
10.1101/gr.215087.116 · doi-reference
10.1186/s13059-020-02135-8
10.1186/s13059-020-02135-8 · doi-reference
10.1073/pnas.1017351108
10.1073/pnas.1017351108 · doi-reference
