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OGtree specifications

Information


Unique identifier OMICS_15386
Name OGtree
Interface Web user interface
Restrictions to use None
Input format FASTA-like
Output data An overlapping-gene distance matrix.
Computer skills Basic
Version 2.0
Stability Stable
Maintained Yes

Documentation


Maintainer


  • person_outline Chin Lung Lu <>

Publication for OGtree

OGtree in publications

 (2)
PMCID: 4274732
PMID: 25465219
DOI: 10.1186/s12870-014-0333-0

[…] of the tree is considered in a heuristic process referred to as hierarchical orthology inference. the resulting clusters of homologues protein sequences were saved in a file called eudicotyledons.ogtree.txt (additional file : file s3, script p0_hieraprocedure). additional filtering steps were applied to this file using the newick utilities [] keeping only clusters that contained sequences […]

PMCID: 2845580
PMID: 20181237
DOI: 10.1186/1471-2105-11-102

[…] entirely. in fact, they are ubiquitous in microbial genomes and more conserved between species than non-overlapping genes. based on this property, we have previously implemented a web server, named ogtree, that allows the user to reconstruct genome trees of some prokaryotes according to their pairwise og distances. by analogy to the analyses of gene content and gene order, the og distance […]


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OGtree institution(s)
Institute of Bioinformatics, National Chiao Tung University, Hsinchu, Taiwan; Department of Biological Science and Technology, National Chiao Tung University, Hsinchu, Taiwan
OGtree funding source(s)
This work was supported in part by National Science Council of Republic of China under grant NSC96-2221-E- 009-126 and in part by the ATU plan of MOE.

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