kmer-counting
There are 1 repository under kmer-counting topic.
suchapalaver / krust
counts k-mers, written in rust
Language:Rust 29alexpreynolds / kmer-counter
Count kmers with a more efficient (faster) hash table
Language:C++ 24- Language:Nextflow 19
- DiscountLanguage:Scala 17
- Language:C++ 16
PASSIONLab / ELBA
Parallel String Graph Construction, Transitive Reduction, and Contig Generation for De Novo Genome Assembly
Language:C++ 14BioJulia / KmerAnalysis.jl
K-mer counting algorithms and count-data utilities for the BioJulia framework
Language:Julia 12A 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.
Language:Python 9- Language:Perl 9
Chaitanyakaul97 / DNA-classifier
DNA classifier using Natural Language Processing. Used K-mer method to convert sequence strings into fixed size words
Language:Jupyter Notebook 4anuradhawick / kmertools
kmer based feature extraction tool for bioinformatics, metagenomics, AI/ML and more
Language:Rust 3pfeiferd / genestrip
Genestrip - Efficient read classification, filtering and k-mer counting for selected groups of species
Language:Java 3- Language:C++ 2
- KmerGMA.jl
Qile0317 / KmerGMA.jl
A kmer-based homology searching tool
Language:Julia 2 Count canonical kmers with Abseil C++ `absl::flat_hash_map`
Language:C++ 1angelovangel / fastkmers
Obtain k-mer counts from fastx files
Language:Rust 1Anonymous7code / Machine-Learning
This is the Machine learning Project Repo.
Language:Jupyter Notebook 1- Language:Python 1
- Language:C++ 1
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.
Language:Java 1Kingsford-Group / hierrepsetselection
Select representative sequencing data sets.
Language:Python 1TayHuiYi / 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
Language:Python 0smhuprikar / 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.
Language:Python 0- Language:Python 0
Count canonical kmers with Boost C++ `boost::unordered_map` hash table
Language:C++Count canonical kmers with Emil Ernerfeldt's emilib::HashMap
Language:C++Count canonical kmers with Malte Skarupke's bytell_hash_map hash table
Language:C++Count canonical kmers with Google sparse_hash_map
Language:C++Count canonical kmers with STL unordered_map
Language:C++gauravcodepro / kmerstring-count-graph
a ruby function for kmer iterations and kmer graph preparation. estimates the kmers and gives occurrences as tab delimited
Language:Rubyjacobjmarks / SPK-counter
Fast and memory-efficient "single pass" kmer counting
Language:C++- Language:C++
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.
Language:HTMLpetermchale / genomics-web-app
vue app with flask REST api to process genomic data
Language:Jupyter Notebook- Language:Python
