NAUniSeq: A fast computational pipeline to search unique sequences for microbial diagnostics

This is the repository of the pipeline META-DIFF, which detects sequences in differential abundances between two conditions, and annotates them taxonomicaly and functionaly.

Visualization package for kmeRs similarity score matrix

kGWASflow is a Snakemake workflow for performing k-mers-based GWAS.

Extract SNPs and accessory differences in closely related bacterial genomes from k-mers

Benchmarks and evaluation scripts for the Fulgor index.

A collection of various biopython scripts.

Alignment-free method to identify and analyse discriminant genomic subsequences within pathogen sequences

Generate K-mer spectra to observe modalities of distributions

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.

[Features extraction method] You can find the new version of CASTOR_KRFE at https://github.com/bioinfoUQAM/CASTOR_KRFE

Coding problems from course 1 of the Bioinformatics specialization

Python assignment for my Bio-535 course at URI, Spring 2018.