This page contains a list of actively maintained software, that has been developed at BiRC. If you have any questions regarding a particular piece of software/wwwservice please contact the person responsible (listed to the right of each software description).
If you are employed at BiRC and want you software listed on this page, please contact Christian N. S. Pedersen.
WWW Services | ||
| FaBox | FASTA online toolbox | Palle Villesen Fredsted |
| PATBox | P-type ATPase sequence classifier and database | Dan Søndergaard |
| Pfold | RNA 2nd structure prediction from a multiple alignment of RNA sequences. | Zsuzsanna Sükösd |
| PhyFi | Draws a phylogony from its Newick description. | Jakob Fredslund |
| PriFii | Finds primers from alignment. | Jakob Fredslund |
| Phylogenetic analysis using a parsimony analysis that takes recombination events into account. | Mikkel Heide Schierup | |
| SAP | Identification of species and other taxonomic units from DNA sequences | Kasper Munch Terkelsen |
| SEQL-NRPS | NRPS A-domain sequence classifier | Dan Søndergaard |
Downloadable Software | ||
| Blossoc | Block-Association Mapping. | Thomas Mailund |
| CoAnnealing | Simulated Annealing Search for Coalescent Trees. | Thomas Mailund |
| CoaSim | Simulating the coalescent process. | Thomas Mailund |
| GeneRecon | A coalescent based tool for fine-scale association mapping. | Thomas Mailund |
| HapCluster | HapCluster is a software package for association mapping. | Thomas Mailund |
| PPfold | RNA 2nd structure prediction from a multiple alignment of RNA sequences. PPfold is an efficient implementation of the service Pfold available above. | Zsuzsanna Sükösd |
| QDist | Computation of the quartet distance between evolutationary trees. An old tool. Use tqDist instead. | Christian N. S. Pedersen |
| QuickJoin | A tool for fast canonical neighbor-joining tree construction but use RapidNJ instead. | Thomas Mailund |
| RapidNJ | A tool for fast canonical neighbor-joining tree construction. | Christian N. S. Pedersen |
| SplitDist | Split-Dist calculates the number of splits (edges) that differs for two trees. | Thomas Mailund |
| tqDist | Computation of the triplet- and Quartet-distance between evolutionary trees. | Christian N. S. Pedersen |
| zipHMM | Library for very fast likelihood computations for hidden Markov models | Christian N. S. Pedersen |
Data Sets | ||
| HCmap | Recombination map of the Human-Chimpanzee ancestor. | Kasper Munch Terkelsen |
