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Update parameters: add link to Alignment Modes page authored by Jorge Navarro Muñoz's avatar Jorge Navarro Muñoz
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parameters.md
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......@@ -154,7 +154,7 @@ Toggle to also add BGCs with hybrid predicted products from the PKS/NRPS Hybrids
--mode {global,lcs,auto}
```
Alignment mode for each pair of gene clusters. 'global' (default) the whole list of domains of each BGC are compared; 'lcs': Longest Common Subcluster mode. Redefine the subset of the domains used to calculate distance by trying to find the longest slice of common domain content per gene in both BGCs, then expand each slice. 'auto' use LCS when at least one of the BGCs in each pair has the 'contig_edge' annotation from antiSMASH v4+, otherwise use global mode on that pair
Alignment mode for each pair of gene clusters. 'global' (default) the whole list of domains of each BGC are compared; 'lcs': Longest Common Subcluster mode. Redefine the subset of the domains used to calculate distance by trying to find the longest slice of common domain content per gene in both BGCs, then expand each slice. 'auto' use LCS when at least one of the BGCs in each pair has the 'contig_edge' annotation from antiSMASH v4+, otherwise use global mode on that pair. Learn more about the alignment modes [here](alignment)
## Anchorfile
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