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|Alternative name||MAtrice REduction|
|Interface||Command line interface|
|Restrictions to use||None|
|Operating system||Unix/Linux, Mac OS, Windows|
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- person_outline MARE TEAM
Multiple Lines of Evidence from Mitochondrial Genomes Resolve Phylogenetic Relationships of Parasitic Wasps in Braconidae
[…] stringent criterion that partitions with more than 10% negative pairwise similarity scores (44 out of 435 in our data with 30 taxa) were excluded in subsequent analyses. For the amino acid sequences, MARE (http://mare.zfmk.de, last accessed 8 Aug, 2016) (), based on weighted geometry quartet mapping (), was used to calculate the relative quality of information of each single gene within the matrix […]
Genome scale data suggest reclassifications in the Leisingera Phaeobacter cluster including proposals for Sedimentitalea gen. nov. and Pseudophaeobacter gen. nov.
[…] “core genes” only, i.e., those alignments containing sequences from all genomes, (ii) a “full” matrix using all alignments comprising at least four sequences, (iii) the same matrix but filtered with MARE (http://mare.zfmk.de) (Meusemann et al., ) without removing organisms. Additionally, two smaller matrices of preselected genes were analyzed, using the distinct sets of 31 genes, respectively, su […]
Transcriptome Data Reveal Syndermatan Relationships and Suggest the Evolution of Endoparasitism in Acanthocephala via an Epizoic Stage
[…] webpage (http://molevol.cmima.csic.es). Subsequent concatenation resulted in a supermatrix of 19 taxa and 1,180 genes. To find a subset of genes suitable for phylogenetic reconstructions, we applied MARE v0.1-rc (MAtrix REduction) . This tool uses quartet mapping with extended geometry mapping to assign information content to a protein sequence. Additionally, data availability is taken into accou […]
Decisive Data Sets in Phylogenomics: Lessons from Studies on the Phylogenetic Relationships of Primarily Wingless Insects
[…] using TREE-PUZZLE v.5.2 (; http://www.tree-puzzle.de, last accessed November 4, 2013), applying the BLOSUM62 substitution matrix () as the BLOSUM62 substitution matrix is implemented in the software MARE (; http://mare.zfmk.de, last accessed November 4, 2013). Fig. 5.For each gene in the data set M_Ento, we calculated the proportions of quartets that predominantly supported either topology T1, T2 […]
Insect Phylogenomics: Exploring the Source of Incongruence Using New Transcriptomic Data
[…] a, 1,579 genes, 744402 amino acid positions but shows only a density of 34.2%. Therefore, different approaches to reduce the amount of missing data were applied: 1) The first matrix was created using MARE (v0.1.2-rc) () (http://mare.zfmk.de) where genes and taxa are selected based on information content and data availability. Applying this approach the dictyopteran Hodotermopsis sjoestedti, Blatte […]
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