QDist statistics

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Citations per year

Number of citations per year for the bioinformatics software tool QDist
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Tool usage distribution map

This map represents all the scientific publications referring to QDist per scientific context
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Protocols

QDist specifications

Information


Unique identifier OMICS_15537
Name QDist
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data The trees in Newick format
Output data The quartet distance between the trees, the summary statistics
Operating system Unix/Linux, Mac OS
Programming languages C++
License GNU General Public License version 3.0
Computer skills Advanced
Version 2.0
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Christian Pedersen

Publications for QDist

QDist citations

 (8)
call_split

Cross species selection scans identify components of C4 photosynthesis in the grasses

2016
J Exp Bot
PMCID: 5429014
PMID: 27436281
DOI: 10.1093/jxb/erw256
call_split See protocol

[…] only the third position of codons. The GTR+gamma+I mutation model was used in both analyses. Resulting trees were then compared with the species phylogeny and tested for topological congruence using qdist (). Failing both phylogenetic congruence tests resulted in exclusion from further analysis. Finally 6784 ortholog groups were obtained. […]

library_books

Feature Optimization for Long Range Visual Homing in Changing Environments

2014
PMCID: 3958223
PMID: 24556671
DOI: 10.3390/s140203342

[…] ment on the distribution quality should be judged in terms of visual homing. The chosen measure of quantitative characterization of distribution, similar to the one proposed in [], is defined as: (17)Qdist=1O×S∑o=1O∑s=1S(−∑i=1nospilog2pi)where pi is the ratio of matching features in the ith sector ring over all the ones in the scale layer (s) of the octave (o). If the correctly matching features w […]

library_books

Alignment Free Genome Tree Inference by Learning Group Specific Distance Metrics

2013
Genome Biol Evol
PMCID: 3762195
PMID: 23843191
DOI: 10.1093/gbe/evt105

[…] al similarity (), we also calculated topological distances between trees. The topological distances between trees were calculated using the normalized quartet distance, as implemented in the program “QDist” () version 2.0, downloaded from http://birc.au.dk/software/qdist/.Note that an increase in congruence between tree topologies results in an increase in the CPCC and a decrease in the quartet di […]

call_split

Cultural Phylogenetics of the Tupi Language Family in Lowland South America

2012
PLoS One
PMCID: 3323632
PMID: 22506065
DOI: 10.1371/journal.pone.0035025
call_split See protocol

[…] pairs of expert trees and ASJP trees for the Tupi-Guarani subgroup, obtaining normalized split distances using SplitDist (http://birc.au.dk/software/splitdist/) and normalized quartet distances using QDist (http://birc.au.dk/software/qdist). For the split distances we use an asymmetric distance measure that counts the number of splits in the first tree that are not found in the second, normalized […]

library_books

A sub cubic time algorithm for computing the quartet distance between two general trees

2011
PMCID: 3141660
PMID: 21639882
DOI: 10.1186/1748-7188-6-15

[…] The software is available from http://www.birc.au.dk/software/qdist. It has been tested on Ubuntu Linux and Mac OS X. […]

call_split

Including RNA secondary structures improves accuracy and robustness in reconstruction of phylogenetic trees

2010
Biol Direct
PMCID: 2821295
PMID: 20078867
DOI: 10.1186/1745-6150-5-4
call_split See protocol

[…] mpared to the respective reference tree. In this regard, two tree distance quantification methods were applied, Robinson-Foulds distances using the Phylip Package v3.68 [] and Quartet distances using Qdist v1.0.6 []. Results of all sequence sets were combined for a given scenario to receive the distributions of bootstrap values, Quartet distances and Robinson-Foulds distances, respectively. The re […]


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QDist institution(s)
Bioinformatics Research Centre, Aarhus University, Aarhus, Denmark

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