Phylogeny/Alignment Tools
- Boxshade - Color-coded plots of pre-aligned sequences.
- Clique - Finds the largest clique of mutually compatible characters.
- ClustalWDist - Generate distance matrix with clustal.
- ClustalWTree - Align two existing alignments (Profiles)
- Consense - Computes consensus trees by the majority-rule method
- DNAdist - Computes distances between species from nucleic acid sequences.
- DNApars - Infer an unrooted phylogeny from NS alignment
- Dollop - Estimates phylogenies by discrete characters using parsimony
- Drawtree- Draw unrooted phylogenetic tree from alignment
- Drawgram - Draw rooted phylogenetic tree from alignment
- Fitch - Estimates phylogenies from distance matrix data
- Format Validator - File format testing utility
- Kitsch - Estimates phylogenies from distance matrix data
- Mix - Estimates phylogenies from discrete character catrices
- MView_alig - Multiple alignment display
- Neighbor - Neighbor joining and UPGMA (Average Linkage Clustering)
- Pars - Multistate discrete-characters parsimony method.
- Phyml – Calculate phylogenies using maximum likelihood
- Protdist - Compute evolutionary distance matrix from PS alignment
- Protpars - Infer an unrooted phylogeny from PS alignment
- Readseq - Extract sequences and translate into new formats
- Seqboot - Produces multiple data sets by bootstrap resampling
- Unroot – Phylip tool for unrooting a tree
If you don't see the tool you need, please Let us know! We can add tools very quickly.
