Difference between revisions of "BUSCO"
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"Write access to the Augustus installation directory is necessary for retraining the gene finder", so retraining is probably best carried out by the sysadmin under "root" user. | "Write access to the Augustus installation directory is necessary for retraining the gene finder", so retraining is probably best carried out by the sysadmin under "root" user. | ||
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| + | = Using = | ||
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| + | The main BUSCO executable is a python script called | ||
| + | BUSCO_v1.22.py | ||
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| + | However, there is a symlink to this called BUSCO, so the program can equally well be launched with a simple | ||
| + | BUSCO | ||
Revision as of 09:31, 27 July 2016
Introduction
BUSCO, like Cegma, is a special tool for the field of "completeness assessment". This concerns genome assemblies, particularly ones generated de-novo, when by concentrating on a core set of genes, one can estimate how complete the assembly is by the number of the these core geens that the assembly has managed to recover.
BUSCO actually stands for "Benchmarking Universal Single-Copy Orthologs" and labels itself as a quality measure of the assembly. Busco also means "I search" in the Spanish, Galician and Portuguese languages, in which the authors find satisfaction, as the broad goal of the tool is one of a quest for quality.
Aspects
BUSCO can work closely with augustus, even as far as undertaking retraining (for a species). However, take note:
"Write access to the Augustus installation directory is necessary for retraining the gene finder", so retraining is probably best carried out by the sysadmin under "root" user.
Using
The main BUSCO executable is a python script called
BUSCO_v1.22.py
However, there is a symlink to this called BUSCO, so the program can equally well be launched with a simple
BUSCO
