Description Usage Arguments Value
Return a supermatrices object from a list of alignments and a groups object.
1 2 3 4 5 6 7 8 | supermatrices_get(alignment_list, groups = NULL, column_cutoff = 0.5,
tip_cutoff = column_cutoff, min_ntips = 5, min_ngenes = 5,
min_nbps = 200)
sift(x, ...)
## S3 method for class 'supermatrices'
sift(x, keep = NULL, drop = NULL)
|
alignment_list |
list of alignments |
groups |
groups object, determines names of monophyletic groups |
column_cutoff |
Min. prop. of non-gaps in an alignment column |
tip_cutoff |
Min. prop. of non-gaps in an alignment row |
min_ntips |
Min. no. of tips in a supermatrix |
min_ngenes |
Min. no. of genes in a supermatrix |
min_nbps |
Min. length (in base pairs) for a gene in a supermatrix |
x |
supermatrices |
keep |
Names of matrices to keep, character vector. |
drop |
Names of matrices to drop, character vector |
supermatrices
supermatrices
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