Python bioinformatics CLI for k-mer counts and de Bruijn graphs
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Updated
Jun 3, 2024 - Python
Python bioinformatics CLI for k-mer counts and de Bruijn graphs
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.
MerCat2: python code for versatile k-mer counting and diversity estimation for database independent property analysis for metaome data
Estimating k-mer coverage histogram of genomics data
A quality control tool for FASTQ files written in rust
counts k-mers, written in rust
MerCat: python code for versatile k-mer counting and diversity estimation for database independent property analysis for meta -ome data
fast and lightweight counting of short k-mers
fast and comprehensive k-mer counting package
Implementación del algoritmo para contar K-mers en una secuencia genética usando GPUs.
A PHP hash table optimized for counting short gene sequences for use in Bioinformatics.
Get Started with DNA Sequencing working with .FastQ and .FastA file formats and performing Pattern Matching Algorithms (Exact & Approximate).
Code examples of fast and simple k-mer counters for tutorial purposes
K-mer indexing and querying in RNA-Seq data
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.
Assignments in C++
find large indels (in the blind spot between GATK/freebayes and SV callers)
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