Execution FlagsΒΆ
These are the flags for the execution process of EnTAP. Flags will be repeated throughout these categories where relevant. These will be used via the command line (denoted CMD) or ini file (denoted INI).
- Required Flags
- Basic Usage Flags
- General EnTAP Flags
- --runP / --runN [CMD]
- -i / --input [string] [CMD]
- -d / --database [multi-string] [CMD]
- --ini [string] [CMD]
- --out-dir [string] [CMD]
- -t / --threads [integer] [CMD]
- --out-dir [string] [CMD]
- --overwrite [CMD]
- --graph [CMD]
- -t / --threads [integer]
- --no-trim [CMD]
- --state [string] [CMD]
- --version [CMD]
- --no-check [CMD]
- --output-format [multi-integer] [INI]
- Expression Analysis Flags
- Frame Selection Flags
- Similarity Search Flags
- Ontology Flags