Loads a Gene List From Synapse

Loads a gene list. If is_syn is TRUE file_path is interperated as a synapse ID. Otherwise file_path is interperated as a file path.

list_load(file_path, network, is_syn = FALSE, synap_import = NULL)

Arguments

file_path	the igraph network to push to synapse eg. net
network	igraph network object to use to filter the vertices From
is_syn	is the list a synapse ID default=FALSE
synap_import	is the reticulated imported synapse from log_into_synapse()$synapse default value is NULL

Value

genes from the input present within the network

Examples

data(slim_net, package = "igraphNetworkExpansion")
all_goterms <- list(
   c(
       'syn25185319', 
       system.file(
           "extdata/inputlists/", 
           "APP_Metabolism.txt", 
           package = "igraphNetworkExpansion"), 
       "APP Metabolism"
   ),
  c(
       'syn25185320', 
       system.file(
           "extdata/inputlists/", 
           "Endolysosomal.txt", 
           package = "igraphNetworkExpansion"), 
       "Endolysosomal"
   )
)
list_load(
   all_goterms[[1]][2],
   network = slim_net
)
#> 24 of 24 (100%) genes from the list appear in the primary network
#>  [1] "GRIN2B"  "TREM2"   "IGF1R"   "APOE"    "CLU"     "GRIN2A"  "APP"    
#>  [8] "NAMPT"   "INSR"    "GJA1"    "LGMN"    "FYN"     "GRIN1"   "EPHA4"  
#> [15] "ITGB2"   "PICALM"  "LRPAP1"  "GRIA2"   "LRP1"    "ABCA7"   "BCL2L11"
#> [22] "GRIA3"   "DLGAP3"  "CD74"