calculate_activity: Signature activity calculation
In greenelab/ADAGEpath: ADAGE-based Signature Analysis
calculate_activity R Documentation
Signature activity calculation
Description
Calculates activities for each signature in an ADAGE model
for each sample in the input_data
Usage
calculate_activity(input_data, model, HW_cutoff = 2.5)
Arguments
input_data
a data.frame with gene IDs in the first column and
expression values from the second column.
model
the ADAGE model to be used for calculating signature activity
HW_cutoff
number of standard deviations away from mean in a node's
weight distribution to be considered as high-weight (default to 2.5).
Signature activities are calculated only using HW genes.
Value
a data.frame with the first column being signature names and
the rest columns storing signature activities for every sample in the
input_data.
greenelab/ADAGEpath documentation built on May 25, 2022, 7:11 a.m.
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| calculate_activity | R Documentation |
Signature activity calculation
Description
Calculates activities for each signature in an ADAGE model for each sample in the input_data
Usage
calculate_activity(input_data, model, HW_cutoff = 2.5)
Arguments
input_data |
a data.frame with gene IDs in the first column and expression values from the second column. |
model |
the ADAGE model to be used for calculating signature activity |
HW_cutoff |
number of standard deviations away from mean in a node's weight distribution to be considered as high-weight (default to 2.5). Signature activities are calculated only using HW genes. |
Value
a data.frame with the first column being signature names and the rest columns storing signature activities for every sample in the input_data.
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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