SMITIDvisu-package      Visualize Data for Host and Viral Population
                        from SMITIDstruct using HTMLwidgets
SMITIDvisu-shiny        Shiny bindings for visualisation widgets
createRainbowColors     createRainbowColors Create a list of colors for
                        each value v
demo.SMITIDvisu.run     demo.SMITIDvisu.run
df2geojson              df2geojson
hostline                A host infomation over time
maptt                   maptt
mapttProxy              mapttProxy
mapttSelectHost         mapttSelectHost
mstCompute              compute the minimum spanning tree
mstVariant              mstVariant
mstVariantProxy         mstVariantProxy
st                      A SMITIDstruct package variable.
st.dist113_2            Distance matrix of observed variants sequences
                        of a host 113 at time 2 from simulation.
st.dist113_all          Distance matrix of observed variants sequences
                        of a host 113 at time 2, 3 and 4 from
                        simulation.
st.listTimeProp113      List of variants ID with subvector for time and
                        value.
st.prop113_2            Variants proportions and count for host 113 at
                        time 2 from simulation.
st.prop113_all          Variants proportions and count for an host 113
                        at time 2, 3 and 4 from simulation.
timeLine                timeLine
timeLineProxy           timeLineProxy get an instance of a timeline
transmissionTree        transmissionTree
transmissionTreeProxy   transmissionTreeProxy
tt.edges                Pathogen link over the time
tt.events               Data.frame of hosts events information by time.
                        Fake data.
tt.nodes                Host list with there status over the time.
updateTimeLine          updateTimeLine
updateTransmissionTree
                        updateTransmissionTree
updatemstVariant        updatemstVariant
