Builds a table of within-group and total log-ratio
variances, log-ratio means, and PALs (see: pals
).
If the argument k
is provided, the table will
label at most k
top PALs. Just as each node
gets assigned a PAL, shale
aims to assign
each edge a PAL. Edges that have a top PAL as one
and only one of their nodes get assigned that PAL.
Edges that have top PALs as both of their nodes
get assigned "Bridged". Edges without a top PAL
as one of their nodes will get assigned a PAL if
either (a) both nodes have the same neighbor PAL
or (b) one node has a "Missing" neighbor PAL.
The cutoff
argument guides the maximum value of
theta above which to exclude the pair. A large integer
cutoff
will instead retrieve the top N pairs as
ranked by theta.
1 |
object |
A |
cutoff |
For |
k |
An integer. For |
prompt |
A logical scalar. Set to |
clean |
A boolean. Toggles whether to remove pairs
with "Bridged" or "Missing" PALs. Used by |
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