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config.yaml
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config.yaml
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# This file should contain everything to configure the workflow on a global scale.
# In case of sample based data, it should be complemented by a samples.tsv file that contains
# one row per sample. It can be parsed easily via pandas.
threads: 3
metadata: /Users/silas/PhD/06_Projects/Warm_claire_microbiota/01_mapping_files/mapping_file_WT.tsv
grouping_variable: Group
Comparisons:
TempOVA-t:
- 'OVA_t-RT'
- 'OVA_t-H'
TempSH:
- 'SH-R'
- 'SH-H'
TempOVA:
- 'OVA-R'
- 'OVA-H'
Ova:
- 'SH-R'
- 'OVA-R'
# OvaH:
# - 'SH-H'
# - 'OVA-H'
fdr_correlations: 0.001
data: /Users/silas/Desktop/WarmMicrobiota/Analysis/output/seqtab.tsv
min_count: 1 # min mean