Infer phylogeny between genomic sequences ========================================= Compare sequences from the reference FASTA file and visualise their relationship in form of phylogenetic tree and interactive multiple alignment. Purpose ------- * Assess relationship and similarity between genomic sequences Required inputs --------------- * Reference genome in fasta format :: |-- reference/ |-- .fa Generated outputs ----------------- * Phylogenetic tree with distances between genomic sequences * Interactive visualization of multiple alignment of reference sequences Example ------- How to run example: .. code-block:: bash cd /usr/local/snakelines/example/fasta_processing snakemake \ --snakefile ../../snakelines.snake \ --configfile config_infer_phylogeny.yaml \ --use-conda Example configuration: .. literalinclude:: ../../example/fasta_processing/config_infer_phylogeny.yaml :language: yaml Planned improvements -------------------- * SVG figure size should be scaled with the number of the sequences Included pipelines ------------------ * None