SMITIDstruct (version 0.0.5)

Data Structure and Manipulations Tool for Host and Viral Population

Description

Statistical Methods for Inferring Transmissions of Infectious Diseases from deep sequencing data (SMITID). It allow sequence-space-time host and viral population data storage, indexation and querying.

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Version

Install

install.packages('SMITIDstruct')

Monthly Downloads

171

Version

0.0.5

License

GPL (>= 2) | file LICENSE

Homepage

https://informatique-mia.inra.fr/biosp/anr-smitid-project

Maintainer

Jean-Francois Rey

Last Published

June 14th, 2019

Functions in SMITIDstruct (0.0.5)

demo.SMITIDstruct.run

Data Structure and Manipulation Tool for Host and Viral Population

createHost

getTransmissionTree

getDate

getInfosByHostAndTime

getDiversity.sfs

createIndex

loadCovs

getDiversity.pDistance

plotDiversity.pDistance