×
Create your own tool library
Bookmark tools and put favorites into folders to find them easily.

Gapped Adjacencies GapAdj

Online

A synteny-based method that is flexible enough to handle a model of evolution involving whole genome duplication events, in addition to rearrangements, gene insertions, and losses. Ancestral relationships between markers are defined in term of Gapped Adjacencies, i.e. pairs of markers separated by up to a given number of markers. It improves on a previous restricted to direct adjacencies, which revealed a high accuracy for adjacency prediction, but with the drawback of being overly conservative, i.e. of generating a large number of contiguous ancestral regions (CARs).

User report

×
Vote up tools and offer feedback
Give value to tools and make your expertise visible
Sort by:

1 user review

1 user review

zakari's avatar image

zakari

hello everyone, I am new in the community and I want to make an analysis that compares three PROCARS, GapAdj and Intercars, so I ask your help if you please

GapAdj forum

×
Communicate with other users
Participate in the forum to get support for using tools. Ask questions about technical specifications.

No open topic.

GapAdj versioning

×
Upload and version your source code
Get your DOI for better tool traceability. Archive your releases so the community can easily visualize progress on you work.

No versioning.

GapAdj classification

GapAdj specifications

Software type:
Package/Module
Restrictions to use:
None
Output data:
An ancestral genome at node ν
Computer skills:
Advanced
Maintained:
Yes
Interface:
Command line interface
Input data:
A set of modern genomes, a species tree S with leaves labeled with genomes, and an internal node of representing a speciation event of interest
Operating system:
Unix/Linux
Stability:
Stable

GapAdj support

Maintainer

  • Dia El-Mabrouk <>

Credits

×
Promote your skills
Define all the tasks you managed and assign your profile the appropriate badges. Become an active member.

Publications

Institution(s)

Département d’Informatique (DIRO), Université de Montréal, Montréal, Canada; McGill Centre for Bioinformatics, McGill University, Montréal, Canada

By using OMICtools you acknowledge that you have read and accepted the terms of the end user license agreement.