Phylogenetic analysis tools and bioinformatics pipelines.

Species tree inference from a set of gene trees using ASTRAL-IV or ASTRAL-Pro3 (ASTER).

Sequence similarity search using BLAST

Multiple sequence alignment using the ClustalW 2.1 binary, with FASTA, PHYLIP and CLUSTAL outputs.

Discovery of cis-regulatory long-range elements correlated with gene expression using DExTER.

FastME 2.0: a comprehensive, accurate and fast distance-based phylogeny inference program

Conserved-block selection from an existing multiple sequence alignment, with normalized FASTA and PHYLIP outputs.

Search for motif occurrences on reference genomes with curated and custom matrices.

Matrix Representation with Parsimony (MRP) supertree inference from two or more Newick trees using PAUP*.

Multiple sequence alignment with MUSCLE 3.8, producing FASTA, CLUSTAL and PHYLIP outputs.

Bayesian phylogeny inference from an aligned FASTA file, with consensus tree and posterior diagnostics.

Maximum-likelihood phylogenetic inference with broad model and optimisation options.

PhySIC_IST supertree inference with optional STC and bootstrap-based correction.

Sequence format conversion using BioPython, supporting FASTA, PHYLIP, CLUSTAL and other formats.

Smart Model Selection (SMS) to rank substitution models with optional PhyML inference.

Multiple sequence alignment with T-Coffee, returning aligned FASTA, CLUSTAL, PHYLIP, guide-tree and optional legacy export formats.

TFScope analyses TF binding from positive/negative BED peaks and motif collections to extract discriminative features.

Parsimony phylogeny inference from an aligned FASTA file using TNT 1.6, with strict consensus output.

Render a Newick tree as a lightweight SVG preview suitable for web display.