The BiomolecularStructures package provides several Bioinformatics-related modules for Julia.
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Jun 13, 2017 - Julia
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Some scripts to make your bioinformatics analyses reproducible and a bit easy 🤓
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Jun 6, 2021 - Shell
This pipeline automates the process of generating phylogenetic trees from sequence data, specifically designed for high-throughput and efficient analysis.
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May 19, 2024 - Python
🦇🦠🌳Study on detection of Brno loanvirus in Southern Russia
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Jan 7, 2026 - Jupyter Notebook
A Python script that align SARS-CoV-2 genomes identifying and reporting pointwise variations.
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Mar 7, 2024 - Python
Complete pipeline that mirrors the manuscript: reference based assembly with depth masking, de novo checks, phylogeny with configurable models including ModelFinder, and targeted mutation analysis for G and F versus NC_038235.1 and NC_001781.1. Includes CI and environment files for easy setup.
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Sep 30, 2025 - Python
Influenza A PB1 FASTA QC, alignment (MAFFT), and country-balanced sampling (R)
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Jan 7, 2026 - R
This project performs an automated phylogenetic analysis of nucleotide sequences retrieved from NCBI. The pipeline includes sequence alignment, concatenation, phylogenetic inference (maximum likelihood, maximum parsimony, and Bayesian), and formatting for visualization.
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May 2, 2025 - Python
This repository provides a reproducible pipeline for phylogenetic analysis using Nextflow, BLASTP, CD-HIT, MAFFT, trimAl, and IQ-TREE. The workflow supports automated BLAST search, clustering, alignment, trimming, and tree inference for protein.
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Sep 18, 2025 - Nextflow
Microbiome analysis pipeline with reference tutorial. This code was written in October 2024 to process rRNA marker gene data (16S and ITS) from rhizosphere soil samples.
unite high-throughput-sequencing 16s soil-sample rrna taxonomy-assignment its microbiome-analysis mafft dada2 marker-gene-analysis greengenes qiime2 microbiome-workflow fasttree microbiome-analysis-pipelines soil-microbiome rhizospheres
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Feb 4, 2025 - Shell
This repository contains a set of scripts and workflows designed to search for Respiratory Complex I (NADH Ubiquinone Oxidoreductase) subunits in prokaryotic genomes and proteomes.
bioinformatics biopython protein-sequences proteome homology-search mafft mmseqs2 fasttree prokaryotic-genomes hmmer3 species-distribution evalue-thresholds operons iqtree2 protein-sequences-tree
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Mar 10, 2025 - Jupyter Notebook
Pipeline to get a protein's residues conservation JSD scores
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Jul 4, 2021 - Python
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