Difference between revisions of "Augustus"
| Line 14: | Line 14: | ||
==protein profiling in blocks== | ==protein profiling in blocks== | ||
| − | augustus provides '''--proteinprofile''', '''--predictionStart''' and '''-predictionEnd''' for this, and can be used in the following manner: | + | 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" | augustus --proteinprofile=example/prfl/BUSCO_7.prfl --predictionStart=163394 --predictionEnd=174110 --species=fly "sampleasroo2_.temp" | ||
Latest revision as of 14:35, 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.
