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Common Config
Paul Hoffman edited this page Feb 1, 2016
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The Common_Config file holds variables that are used by multiple methods in ANGSD-wrapper:
| Variable | Function |
|---|---|
GROUP_SAMPLES |
A list of samples to be used in calculations |
GROUP_INBREEDING |
A list of inbreeding coefficients, where each line here corresponds to a line in GROUP_SAMPLES
|
ANC_SEQ |
Path to ancestral sequence |
REF_SEQ |
Path to reference sequence |
PROJECT |
Name given to all outputs in ANGSD-wrapper |
SCRATCH |
Place to store files, the full path is SCRATCH/PROJECT/<name of method>
|
REGIONS |
Limit the scope of ANGSD-wrapper to certain regions |