kmer based feature extraction tool for bioinformatics, metagenomics, AI/ML and more

k-mer similarity analysis pipeline

MerCat: python code for versatile k-mer counting and diversity estimation for database independent property analysis for meta -ome data

fast and comprehensive k-mer counting package

Very large scale k-mer counting and analysis on Apache Spark.

K-mer counting algorithms and count-data utilities for the BioJulia framework

MerCat2: python code for versatile k-mer counting and diversity estimation for database independent property analysis for metaome data

A naive implementation of a k-mer counter in Python, takes fasta files and k-mer length requests and outputs all k-mers of length k, their reverse complement, and their frequency within their respective sequence for each sequence in the file.

Nextflow DSL2 pipeline to extract statistics from a genome about its sequence composition

Generate K-mer spectra to observe modalities of distributions

Kmer Research in Python and R

Count canonical kmers with Abseil C++ `absl::flat_hash_map`

Count canonical kmers with Malte Skarupke's bytell_hash_map hash table

A Streaming Algorithm for Estimating k-mer Counts with Optimal Space Usage in Parallel

Count canonical kmers with STL unordered_map

Count canonical kmers with Boost C++ `boost::unordered_map` hash table

Count canonical kmers with Google sparse_hash_map

A program to read sequences from fastq file and find out the frequency of all substrings with length k across all sequences in the file.

This is our implementation for D2 distance algorithm for k-mers.

Counts the number of occurrences of each k-mer in a DNA string