SMITIDvisu-package |
Visualize Data for Host and Viral Population from SMITIDstruct using HTMLwidgets |
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 |
mapttOutput |
Shiny bindings for visualisation widgets |
mapttProxy |
mapttProxy |
mapttSelectHost |
mapttSelectHost |
mstCompute |
compute the minimum spanning tree |
mstVariant |
mstVariant |
mstVariantOutput |
Shiny bindings for visualisation widgets |
mstVariantProxy |
mstVariantProxy |
renderMaptt |
Shiny bindings for visualisation widgets |
rendermstVariant |
Shiny bindings for visualisation widgets |
renderTimeLine |
Shiny bindings for visualisation widgets |
renderTransmissionTree |
Shiny bindings for visualisation widgets |
SMITIDvisu |
Visualize Data for Host and Viral Population from SMITIDstruct using HTMLwidgets |
SMITIDvisu-shiny |
Shiny bindings for visualisation widgets |
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 |
timeLineOutput |
Shiny bindings for visualisation widgets |
timeLineProxy |
timeLineProxy get an instance of a timeline |
transmissionTree |
transmissionTree |
transmissionTreeOutput |
Shiny bindings for visualisation widgets |
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. |
updatemstVariant |
updatemstVariant |
updateTimeLine |
updateTimeLine |
updateTransmissionTree |
updateTransmissionTree |