kmer-counting

anuradhawick/kmertools

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

alexpreynolds/kmer-counter

Count kmers with a more efficient (faster) hash table

nf-core/kmermaid

k-mer similarity analysis pipeline

jtnystrom/Discount

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

slowikj/seqR

fast and comprehensive k-mer counting package

PASSIONLab/ELBA

Parallel String Graph Construction, Transitive Reduction, and Contig Generation for De Novo Genome Assembly

BioJulia/KmerAnalysis.jl

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

tseemann/kounta

🧮 🔢 Generate multi-sample k-mer count matrix from WGS

suchapalaver/fastas2kmers

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.

pfeiferd/genestrip

Genestrip - Efficient read classification, filtering and k-mer counting for selected groups of species

Chaitanyakaul97/DNA-classifier

DNA classifier using Natural Language Processing. Used K-mer method to convert sequence strings into fixed size words

Qile0317/KmerGMA.jl

A kmer-based homology searching tool

jdisset/kmap

Represents sequences files in fasta format in terms of their kmer counts.

alexpreynolds/kmer-counter-abseil

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

angelovangel/fastkmers

Obtain k-mer counts from fastx files

Anonymous7code/Machine-Learning

This is the Machine learning Project Repo.

arriam-lab2/yack

fast and lightweight counting of short k-mers

at-cg/MMC

Minimizer counting and analysis

GZHoffie/kmer-count

Implementation of k-mer counting algorithms BFCounter and experimental implementation of Misra-Gries. The goal is to use as little memory as possible.

Kingsford-Group/hierrepsetselection

Select representative sequencing data sets.

pfeiferd/genestrip-db

A selection of databases for Genestrip

TayHuiYi/kmer-counting

Counting Bloom Filter Algorithm to count kmers

rejoyc-cs/k_mer_in_DNA

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

smhuprikar/AdapterFinder

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.

victoria-r/PythonProjects

Various python projects.

alexpreynolds/kmer-counter-boost

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

alexpreynolds/kmer-counter-emilib

Count canonical kmers with Emil Ernerfeldt's emilib::HashMap

alexpreynolds/kmer-counter-sparse

Count canonical kmers with Google sparse_hash_map

alexpreynolds/kmer-counter-unordmap

Count canonical kmers with STL unordered_map

codecreatede/kmer-count

ruby iter for implementation of kmer count

codecreatede/kmer-nodes

a kmer filtering based on the end terminal node bases

Lizhen0909/SpaRC-MPI

MPI version of Sparc

lvn3668/KmerCounter

Kmer counter is written in GO Lang v 1.16.5 To install GO on Windows, follow the instructions at https://golang.org/doc/install 4 GO implementation of N-mer counter in DNA sequences which tests for validity of input. It reads in file name (of fasta file) It reads the size length (kmer length) for which counts are desired and writes out to file, counts of all overlapping kmers of size 1 through the specified input. It checks if fasta file is empty amd whether kmer length is specified.

petermchale/genomics-web-app

vue app with flask REST api to process genomic data

pommevilla/sbfp