check_true_pair_directness: Check whether a pair of individuals represent a transmission...
In thednainus/HIVepisimAnalysis: Functions to analyse results from network analysis
View source: R/summary_utils.R
check_true_pair_directness R Documentation
Check whether a pair of individuals represent a transmission pair.
Description
This function will check whether a pair of individuals (host.1 and host.2)
represent a transmission pair from host.1 to host.2 or host.2 to host.1
independent of phyloscanner results.
Usage
check_true_pair_directness(df1, tm)
Arguments
df1
Dataframe containing information of summarized results obtained
with phyloscanner after running the function summarize_trans.
tm
Dataframe containing information of for the transmission matrix.
Value
Dataframe with a new column "real_pair" that take the value "true"
(for a true transmission pair independent of directness,
which means host.1 transmitted to host.2 or host.2 transmitted to host.1).
It will also have another column "time_trans" for the time of transmission
of a real pair. If a pair is not a real transmission pair, than the value
for time_trans will be "NA".
thednainus/HIVepisimAnalysis documentation built on Sept. 21, 2023, 7:32 a.m.
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View source: R/summary_utils.R
| check_true_pair_directness | R Documentation |
Check whether a pair of individuals represent a transmission pair.
Description
This function will check whether a pair of individuals (host.1 and host.2) represent a transmission pair from host.1 to host.2 or host.2 to host.1 independent of phyloscanner results.
Usage
check_true_pair_directness(df1, tm)
Arguments
df1 |
Dataframe containing information of summarized results obtained with phyloscanner after running the function summarize_trans. |
tm |
Dataframe containing information of for the transmission matrix. |
Value
Dataframe with a new column "real_pair" that take the value "true" (for a true transmission pair independent of directness, which means host.1 transmitted to host.2 or host.2 transmitted to host.1). It will also have another column "time_trans" for the time of transmission of a real pair. If a pair is not a real transmission pair, than the value for time_trans will be "NA".
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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