key-r-code/nbc-based-novelty-detection-extended

Multi-Level Taxonomic Novelty Detection with Increased Genomic Depth

Language: Python - Size: 39 MB - Last synced at: 15 days ago - Pushed at: 15 days ago - Stars: 1 - Forks: 0

MatthewRalston/kmerdb

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

Language: Python - Size: 59.5 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 12 - Forks: 1

lh3/kmer-cnt

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

Language: C++ - Size: 81.1 KB - Last synced at: 27 days ago - Pushed at: about 5 years ago - Stars: 168 - Forks: 15

bcgsc/ntCard

Estimating k-mer coverage histogram of genomics data

Language: C++ - Size: 1.24 MB - Last synced at: 7 days ago - Pushed at: over 1 year ago - Stars: 78 - Forks: 9

key-r-code/naive-bayes-multi-level-basic

NBC-Based Novelty Detection in Multi-Level Taxonomy

Language: Jupyter Notebook - Size: 4.01 MB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 1 - Forks: 0

rarissimaavis/bfcounter-bloom-filter

Analisi di un tool per il conteggio dei k-mer tramite Bloom Filter

Size: 3.29 MB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 0 - Forks: 0

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: Python - Size: 66.7 MB - Last synced at: 5 days ago - Pushed at: 5 months ago - Stars: 8 - Forks: 0

andrewdalpino/DNAHash

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

Language: Python - Size: 91.8 KB - Last synced at: 3 days ago - Pushed at: 6 months ago - Stars: 1 - Forks: 0

slowikj/seqR

fast and comprehensive k-mer counting package

Language: C++ - Size: 1.72 MB - Last synced at: 24 days ago - Pushed at: over 3 years ago - Stars: 18 - Forks: 1

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.

Size: 24.4 KB - Last synced at: about 2 months ago - Pushed at: 8 months ago - Stars: 0 - Forks: 0

suchapalaver/krust

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

Language: Rust - Size: 23.1 MB - Last synced at: 23 days ago - Pushed at: over 1 year ago - Stars: 30 - Forks: 5

fastqc-rs/fastqc-rs

A quality control tool for FASTQ files written in rust

Language: Rust - Size: 780 KB - Last synced at: about 1 year ago - Pushed at: over 1 year ago - Stars: 31 - Forks: 6

raw-lab/mercat2

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

Language: HTML - Size: 105 MB - Last synced at: 6 months ago - Pushed at: 11 months ago - Stars: 11 - Forks: 1

brentp/indelope

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

Language: Nim - Size: 133 KB - Last synced at: about 2 months ago - Pushed at: over 7 years ago - Stars: 39 - Forks: 1

pmenzel/kiq

K-mer indexing and querying in RNA-Seq data

Language: C++ - Size: 77.1 KB - Last synced at: about 2 years ago - Pushed at: over 6 years ago - Stars: 5 - Forks: 0

Scien-ide/Helix 📦

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

Language: PHP - Size: 227 KB - Last synced at: 7 months ago - Pushed at: almost 4 years ago - Stars: 1 - Forks: 0

pnnl/mercat

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

Language: Python - Size: 2.7 MB - Last synced at: 15 days ago - Pushed at: over 2 years ago - Stars: 18 - Forks: 13

visheshsinha/DNA-Sequencing

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

Language: Jupyter Notebook - Size: 324 KB - Last synced at: almost 2 years ago - Pushed at: over 4 years ago - Stars: 2 - Forks: 1

im-mou/gpu-kmer-counter

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

Language: C - Size: 21.5 KB - Last synced at: about 1 month ago - Pushed at: almost 4 years ago - Stars: 0 - Forks: 0

arriam-lab2/yack

fast and lightweight counting of short k-mers

Language: Python - Size: 170 KB - Last synced at: 22 days ago - Pushed at: over 2 years ago - Stars: 1 - Forks: 0

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++ - Size: 1.29 MB - Last synced at: about 2 years ago - Pushed at: over 6 years ago - Stars: 0 - Forks: 0

pranavkadam/MiniProjects

Assignments in C++

Language: C++ - Size: 10.7 KB - Last synced at: about 2 years ago - Pushed at: almost 7 years ago - Stars: 0 - Forks: 0

amatur/CRISPR-nRef-gRNA-Design

Language: Shell - Size: 43.9 KB - Last synced at: about 2 years ago - Pushed at: over 7 years ago - Stars: 0 - Forks: 0