Difference between revisions of "Augustus"
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Worthy gene prediction program from Mario Stanke at Greifenswald. | Worthy gene prediction program from Mario Stanke at Greifenswald. | ||
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| + | = Contents = | ||
| + | |||
| + | Augustus has many script available, and several executables besides the main "augustus" executable. | ||
| + | |||
| + | It also has a config directory available through the environmental variable '''$AUGUSTUS_CONFIG_PATH''' | ||
| + | |||
| + | = Usage = | ||
| + | |||
| + | |||
| + | ==protein profiling in blocks== | ||
| + | |||
| + | augustus provides '''--proteinprofile''', '''--predictionStart''' and '''--predictionEnd''' for this, and can be used in the following manner: | ||
| + | |||
| + | augustus --proteinprofile=example/prfl/BUSCO_7.prfl --predictionStart=163394 --predictionEnd=174110 --species=fly "sampleasroo2_.temp" | ||
| + | |||
= Admin notes only= | = Admin notes only= | ||
== Compilation == | == Compilation == | ||
| + | |||
Is a simple "make" but the Makefiles (especially the ne inside "src") need heavy editing. | Is a simple "make" but the Makefiles (especially the ne inside "src") need heavy editing. | ||
| − | colamd | + | filterBam particularly |
| + | |||
| + | colamd, got rid of this. | ||
Latest revision as of 15:35, 27 July 2016
Contents
Introduction
Worthy gene prediction program from Mario Stanke at Greifenswald.
Contents
Augustus has many script available, and several executables besides the main "augustus" executable.
It also has a config directory available through the environmental variable $AUGUSTUS_CONFIG_PATH
Usage
protein profiling in blocks
augustus provides --proteinprofile, --predictionStart and --predictionEnd for this, and can be used in the following manner:
augustus --proteinprofile=example/prfl/BUSCO_7.prfl --predictionStart=163394 --predictionEnd=174110 --species=fly "sampleasroo2_.temp"
Admin notes only
Compilation
Is a simple "make" but the Makefiles (especially the ne inside "src") need heavy editing.
filterBam particularly
colamd, got rid of this.
