Difference between revisions of "AUGUSTUS 2016"
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== Introduction == | == Introduction == | ||
AUGUSTUS is a program | AUGUSTUS is a gene prediction program for eukaryotes written by Mario Stanke, Oliver Keller, Stefanie König, Lizzy Gerischer and Katharina Hoff. It can be used as an ab initio program, which means it bases its prediction purely on the sequence. AUGUSTUS may also incorporate hints on the gene structure coming from extrinsic sources such as EST, MS/MS, protein alignments and syntenic genomic alignments. Since version 3.0 AUGUSTUS can also predict the genes simultaneously in several aligned genomes. | ||
== Installed versions == | == Installed versions == | ||
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On environment ''hpc-env/6.4'' | On environment ''hpc-env/6.4'' | ||
'''AUGUSTUS/3.2.3-intel-2018a-Python-2.7.14''' | '''AUGUSTUS/3.2.3-intel-2018a-Python-2.7.14''' | ||
'''AUGUSTUS/3.3-intel-2018a''' | |||
'''AUGUSTUS/3.3.2-intel-2018a''' | |||
On environment ''hpc-env/8.3'' | |||
'''AUGUSTUS/3.3.3-foss-2019b''' | |||
'''AUGUSTUS/3.4.0-foss-2019b''' | |||
== Using AUGUSTUS on the HPC cluster== | == Using AUGUSTUS on the HPC cluster== | ||
If you want to work on the new environment, you must first switch to ''hpc-env/6.4'' before loading the lpsolve module: | If you want to work on the new environment, you must first switch to ''hpc-env/6.4'' before loading the lpsolve module: | ||
module load hpc-env/ | module load hpc-env/8.3 # this step is optional, but recommended to get the most current version | ||
module load AUGUSTUS | module load AUGUSTUS | ||
Latest revision as of 18:59, 22 February 2022
Introduction
AUGUSTUS is a gene prediction program for eukaryotes written by Mario Stanke, Oliver Keller, Stefanie König, Lizzy Gerischer and Katharina Hoff. It can be used as an ab initio program, which means it bases its prediction purely on the sequence. AUGUSTUS may also incorporate hints on the gene structure coming from extrinsic sources such as EST, MS/MS, protein alignments and syntenic genomic alignments. Since version 3.0 AUGUSTUS can also predict the genes simultaneously in several aligned genomes.
Installed versions
The currently installed versions are
On environment hpc-uniol-env AUGUSTUS/3.2.3-intel-2016b-Python-2.7.12
On environment hpc-env/6.4 AUGUSTUS/3.2.3-intel-2018a-Python-2.7.14 AUGUSTUS/3.3-intel-2018a AUGUSTUS/3.3.2-intel-2018a
On environment hpc-env/8.3 AUGUSTUS/3.3.3-foss-2019b AUGUSTUS/3.4.0-foss-2019b
Using AUGUSTUS on the HPC cluster
If you want to work on the new environment, you must first switch to hpc-env/6.4 before loading the lpsolve module:
module load hpc-env/8.3 # this step is optional, but recommended to get the most current version module load AUGUSTUS
Documentation
If you want a short introduction to the available commands, you can use the help function after loading the module. Just type in:
augustus --help
The full documentation of AUGUSTUS can be found here.
