Insertion Deletion Analysis While Accounting for Possible Missing Data

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Documentation for package ‘indelmiss’ version 1.0.10

• DESCRIPTION file.
• Package NEWS.

Help Pages

indelmiss-package	Insertion deletion analysis while accounting for possible missing data.
gardnerelladata	Gardnerella vaginalis phyletic data (gene family memberships) and phylogenetic tree
indelmiss	Insertion deletion analysis while accounting for possible missing data.
indelrates	Function for estimating indel rates while accounting for missing data.
mycobacteriumdata1	Mycobacterium data phyletic data (gene family memberships) and tree
mycobacteriumdata2	Alternate Mycobacterium tree.
plot.indelmiss	Plot parameter estimates from the model fit
plotp	Plot estimates for the parameter that accounts for possible missing data
plotrates	Plot estimates for insertion and deletion rates
plottree	Plot the tree used the branches colored according to the different specified branch groupings (or clades) following unique rates.
print.indelmiss	Print summary information from fit