Benchmarks and evaluation scripts for the Fulgor index.
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Updated
May 15, 2023 - Python
Benchmarks and evaluation scripts for the Fulgor index.
Analysis of DNA Sequence Classification Using Neural Networks - Bioinformatics Course Project - Winter 2022
The generation of a kmers dataset that is associated with multiple gene sequences and the further manipulation of this generated dataset are the main contents of the current project.
Convert python string to hashed kmers and back again
[Features extraction method] You can find the new version of CASTOR_KRFE at https://github.com/bioinfoUQAM/CASTOR_KRFE
Extract SNPs and accessory differences in closely related bacterial genomes from k-mers
DNA CLASSIFICATION
This is the repository of the pipeline META-DIFF, which detects sequences in differential abundances between two conditions, and annotates them taxonomicaly and functionaly.
This is our implementation for D2 distance algorithm for k-mers.
An algorithm for finding SNPs of a long read compared to a reference genome
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.
Alignment-Free phylogenetic tree construction from .fasta sequence files
reference-free base quality score recalibration
A collection of various biopython scripts.
Generate K-mer spectra to observe modalities of distributions
NAUniSeq: A fast computational pipeline to search unique sequences for microbial diagnostics
Coding problems from course 1 of the Bioinformatics specialization
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