filter_corecmotifs: Filter CoRecMotifs
In Siggers-Lab/hTF_array: Process and Visualize CoRec Data

filter_corecmotifs

R Documentation

Filter CoRecMotifs

Description

Filter a list of CoRecMotifs, retaining only those that satisfy all of your conditions.

Usage

filter_corecmotifs(
  corecmotifs,
  probe_set = NULL,
  pbm_condition = NULL,
  array_id = NULL,
  motif_strength = NULL,
  rolling_ic = NULL,
  seed_sequence = NULL,
  motif_name = NULL,
  match_name = NULL,
  match_altname = NULL,
  match_pvalue = NULL,
  match_cluster = NULL,
  output_file = NULL,
  check_corecmotifs = TRUE
)

Arguments

`corecmotifs`	`list`. The CoRecMotifs to filter.
`probe_set`	`character` or `NULL`. The probe sets to keep or NULL not to filter by probe set. (Default: NULL)
`pbm_condition`	`character` or `NULL`. The PBM conditions to keep or NULL not to filter by PBM condition. (Default: NULL)
`array_id`	`character` or `NULL`. The array IDs to keep or NULL not to filter by array ID. (Default: NULL)
`motif_strength`	`numeric(1)` or `NULL`. The minimum motif strength to keep or NULL not to filter by motif strength. (Default: NULL)
`rolling_ic`	`numeric(1)` or `NULL`. The minimum rolling IC to keep or NULL not to filter by rolling IC. (Default: NULL)
`seed_sequence`	`character` or `NULL`. The seed sequences to keep or NULL not to filter by seed sequence. (Default: NULL)
`motif_name`	`character` or `NULL`. The motif names to keep or NULL not to filter by motif name. (Default: NULL)
`match_name`	`character` or `NULL`. The match motif names to keep or NULL not to filter by match motif name. (Default: NULL)
`match_altname`	`character` or `NULL`. The match motif altnames to keep or NULL not to filter by match motif altname. (Default: NULL)
`match_pvalue`	`numeric(1)` or `NULL`. The maximum match p-value to keep or NULL not to filter by match p-value. (Default: NULL)
`match_cluster`	`character` or `NULL`. The match clusters to keep or NULL not to filter by match cluster. (Default: NULL)
`output_file`	`character(1)` or `NULL`. The path to the file where the results should be saved, or NULL not to save the results. (Default: NULL)
`check_corecmotifs`	`logical(1)`. Should `corecmotifs` be checked for validity? Setting this to FALSE can increase speed, but if `corecmotifs` contains anything other than valid CoRecMotifs, it may produce uninformative error messages. (Default: TRUE)