TCS 1.21 – Phylogenetic Network Estimation using Statistical Parsimony

TCS 1.21

:: DESCRIPTION

TCS is a Java computer program to estimate gene genealogies including multifurcations and/or reticulations (i.e. networks). The network estimation implemented in TCS is also known as Statistical Parsimony. A cladistic analysis of phenotypic associations with haplotypes inferred from restriction endonuclease mapping and DNA sequence data. III. Cladogram estimation. Genetics 132:619-633.

::DEVELOPER

Computational Science Laboratory

:: SCREENSHOTS

:: REQUIREMENTS

  • Windows / Linux / MacOSX
  • Java

:: DOWNLOAD

TCS

:: MORE INFORMATION

Citation

Clement M, Posada D and Crandall K. 2000.
TCS: a computer program to estimate gene genealogies.
Molecular Ecology 9(10): 1657-1660

tcsBU – Extend TCS Network Layout and Visualization

tcsBU

:: DESCRIPTION

tcsBU is a web-based program that extends the capabilities of TCS, by implementing haplotype classification into an arbitrary user-defined scheme, which is displayed as pie-chart like graphs embedded into the network.

::DEVELOPER

CIBIO – Research Centre in Biodiversity and Genetic Resource

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

tcsBU: a tool to extend TCS network layout and visualization.
Santos AM, Cabezas MP, Tavares AI, Xavier R, Branco M.
Bioinformatics. 2015 Oct 29. pii: btv636.

TCS – Evaluation and Filtering of multiple Sequence Alignments

TCS

:: DESCRIPTION

TCS (Transitive Consistency Score) web server is a service making it possible to estimate the local reliability of protein multiple sequence alignments (MSAs) using the TCS index.

::DEVELOPER

Notredame’s Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web Browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

TCS: a web server for multiple sequence alignment evaluation and phylogenetic reconstruction.
Chang JM, Di Tommaso P, Lefort V, Gascuel O, Notredame C.
Nucleic Acids Res. 2015 Apr 8. pii: gkv310.