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We noted that many Fusobacterium nucleatum sequences are being lost in 'deenurp filter-outliers' - one possibility is that there are two distinct populations and we lose the smaller one. First thing to follow up is:
get all F. nucleatum sequences from rdp named (there are ~150)
align with muscle
make a tree - are there two distinct clades?
If this turns out to be the issue, will need to consider whether to treat each subpopulation separately (ie, identify centroid and draw radius for each).
The text was updated successfully, but these errors were encountered:
We noted that many Fusobacterium nucleatum sequences are being lost in 'deenurp filter-outliers' - one possibility is that there are two distinct populations and we lose the smaller one. First thing to follow up is:
If this turns out to be the issue, will need to consider whether to treat each subpopulation separately (ie, identify centroid and draw radius for each).
The text was updated successfully, but these errors were encountered: