KaminoBuild a concatenated amino-acid alignment from proteomes using shared sequence anchors, without a reference genome or conventional marker-based multiple sequence alignment. Supports approximate protein prediction from bacterial genome assemblies and optional neighbour-joining inference.Versions

v2.3.0 (default)

Tags: bioinformatics, phylogenomics, amino acid alignment, proteomes, neighbour joiningParameters

files (file, multiple) required: At least two FASTA files, one per sample. Upload protein sequences in proteome mode, or bacterial nucleotide assemblies in bacterial_genomes mode.

input_type (enum) required: Input sequence type. All files must use the selected type. Options: bacterial_genomes, proteomes

min_freq (float) required: Minimum fraction of samples present at an alignment position, between 0 and 1. Default: 0.85.

tree (enum) required: Generate a quick neighbour-joining overview tree. Options: yes, no

Links

License: MIT

Cite as: Derelle R, Lees JA, Chindelevitch L. (2026). kamino: fast proteome-wide variant calling for amino acid phylogenomics. *bioRxiv*, preprint (version 2). https://www.biorxiv.org/content/10.64898/2026.05.21.726148v2

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