k-mer-counting

There are 20 repositories under k-mer-counting topic.

  • lh3/kmer-cnt

    Code examples of fast and simple k-mer counters for tutorial purposes

    Language:C++16710915

  • bcgsc/ntCard

    Estimating k-mer coverage histogram of genomics data

    Language:C++7619419

  • brentp/indelope

    find large indels (in the blind spot between GATK/freebayes and SV callers)

    Language:Nim39961

  • fastqc-rs/fastqc-rs

    A quality control tool for FASTQ files written in rust

    Language:Rust38266

  • suchapalaver/krust

    Bioinformatics 101 tool for counting unique k-length substrings in DNA

    Language:Rust300185

  • pnnl/mercat

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

    Language:Python186011

  • slowikj/seqR

    fast and comprehensive k-mer counting package

    Language:C++183471

  • MatthewRalston/kmerdb

    Python bioinformatics CLI for k-mer counts and de Bruijn graphs

    Language:Python1221091

  • raw-lab/mercat2

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

    Language:HTML114101

  • microbial-pangenomes-lab/panfeed

    A k-mer counter that streams gene-cluster specific k-mers, while keeping k-mer positional information. Useful for microbial GWAS analyses with higher interpretability.

    Language:Python8310

  • pmenzel/kiq

    K-mer indexing and querying in RNA-Seq data

    Language:C++6310

  • visheshsinha/DNA-Sequencing

    Get Started with DNA Sequencing working with .FastQ and .FastA file formats and performing Pattern Matching Algorithms (Exact & Approximate).

    Language:Jupyter Notebook2211

  • andrewdalpino/DNAHash

    A specialized datastructure for counting short DNA sequences for use in Machine Learning and Bioinformatics.

    Language:Python10

  • arriam-lab2/yack

    fast and lightweight counting of short k-mers

    Language:Python1300

  • Scien-ide/Helix

    A PHP hash table optimized for counting short gene sequences for use in Bioinformatics.

    Language:PHP1100

  • amatur/CRISPR-nRef-gRNA-Design

    Language:Shell0300

  • amirhosseinazami1373/DNA-Sequencing-using-K-mer-Counting-and-Machine-Learning-Techniques

    Utilizing support vector machines, naïve bayes classification and neural networks to find which gives the best results of classification of DNA sequence data into 7 different protein classes.

    00

  • im-mou/gpu-kmer-counter

    Implementación del algoritmo para contar K-mers en una secuencia genética usando GPUs.

    Language:C0100

  • pranavkadam/MiniProjects

    Assignments in C++

    Language:C++0000

  • jamshed/KmerEstimate_Project

    A project submitted as the requirement of the course CSE 549 (Computational Biology), titled as "Efficient Parallelization for KmerEstimate: A Streaming Algorithm for Estimating k-mer Counts with Optimal Space Usage". Original serial algorithm available at github.com/srbehera11/KmerEstimate.

    Language:C++10