Tag: Unaligned

JolyTree 2.1 – Fast Distance-based Phylogenetic Inference from unaligned Genome Sequences

JolyTree 2.1

:: DESCRIPTION

JolyTree implements an alignment-free distance-based procedure for inferring phylogenetic trees from genome contig sequences. For each pair of genomes, a dissimilarity measure is first computed and next transformed to obtain an estimation of the number of substitution events that have occurred during their evolution.

::DEVELOPER

Alexis Criscuolo (alexis.criscuolo@pasteur.fr)

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux/  MacOsX

:: DOWNLOAD

JolyTree

:: MORE INFORMATION

Citation

Alexis Criscuolo,
A fast alignment-free bioinformatics procedure to infer accurate distance-based phylogenetic trees from genome assemblies
Research Ideas and Outcomes, 2019, 5:e36178.

Pratt 2.1 – Find Flexible Patterns in Unaligned Protein Sequences

Pratt 2.1

:: DESCRIPTION

PRATT is a tool to discover patterns that are conserved in a set of protein sequences. The user can specify what kind of patterns should be searched for, and how many sequences should match a pattern to be reported.

Pratt Online Version

::DEVELOPER

Inge Jonassen

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux

:: DOWNLOAD

 Pratt

:: MORE INFORMATION

Citation

I.Jonassen, J.F.Collins, D.G.Higgins.
Finding flexible patterns in unaligned protein sequences
Protein Science 4, 1587-1595 (1995)

I. Jonassen
Efficient discovery of conserved patterns using a pattern graph.
CABIOS 13, 509-522 (1997).

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