assign.events.to.clones.of.a.tree: Assign events to clones based on presence/absence of them...
In hdng/clonevol: Clonal ordering and visualization
Description
Many events can be clustered correctly due to VAF can not
be estimated (eg. indels, copy number, copy altered SNVs). This function
try a best guess of what clone should the events belong to. It will look
at the "sample" column of the merged tree data frame and match with the
samples that we see the event. The clone that have the max number of
samples matching will be chosen.
Usage
1
assign.events.to.clones.of.a.tree(tree, events, samples, cutoff = 0)
Arguments
tree:
a merged tree
events:
a data frame containing events and presence/absence
status in each sample (required colums: "event", followed by sample
columns representing VAF, each in a column
samples:
samples (equivalent to vaf.col.names when calling
infer.clonal.models
cutoff:
VAF cutoff to determine presence/absence of an event
in a sample
hdng/clonevol documentation built on May 17, 2019, 3:19 p.m.
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Description
Many events can be clustered correctly due to VAF can not be estimated (eg. indels, copy number, copy altered SNVs). This function try a best guess of what clone should the events belong to. It will look at the "sample" column of the merged tree data frame and match with the samples that we see the event. The clone that have the max number of samples matching will be chosen.
Usage
1 | assign.events.to.clones.of.a.tree(tree, events, samples, cutoff = 0)
|
Arguments
tree: |
a merged tree |
events: |
a data frame containing events and presence/absence status in each sample (required colums: "event", followed by sample columns representing VAF, each in a column |
samples: |
samples (equivalent to vaf.col.names when calling infer.clonal.models |
cutoff: |
VAF cutoff to determine presence/absence of an event in a sample |
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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