subnet-methods: Subset the basic networks

In aib-group/PFP: Pathway Fingerprint Framework in R

Description

Extract or Replace parts of the PFPRefnet.

Usage

subnet(
  object,
  group_name = NULL,
  index = NULL,
  index_type = c("slice", "pathway_id", "pathway_name")
)

## S4 method for signature 'PFPRefnet'
subnet(
  object,
  group_name = NULL,
  index = NULL,
  index_type = c("slice", "pathway_id", "pathway_name")
)

Arguments

object,	PFPRefnet class.
group_name,	character, indicating the groups to subset.
index,	NULL or a list contains slice/numeric, character, specifying elements to extract. This parameter' length must be the same as group_name. Default is NULL, indicating extract all the networks of a group. See details for more information.
index_type,	character, the type pf index, which could be "slice","id","name".

Details

This function help users to extract the specific networks for customized analysis, which could be of entire group networks or some part of a specific group networks.

Note, the index argument is only worked while the group_name argument is consideration, which means group_name is not NULL. And the length must be the same as group_name. Default is NULL, indicating extract the entire group basic networks.

Value

sub the network

See Also

PFPRefnet-class

Examples

data(PFPRefnet_hsa)
subnet <- subnet(PFPRefnet_hsa)

aib-group/PFP documentation built on Dec. 27, 2020, 1:13 a.m.