get_tandem_id_from_logic_operation {avidaR}

Get tandem repeat from logic operations

Description

Get the tandem repeat contained in the transcriptome of a digital organism that executes a specific combination of logic operations.

Usage

get_tandem_id_from_logic_operation(
  logic_operation,
  seed_id = sample(1:1000, 1),
  tandem_seq = FALSE,
  tandem_pos = FALSE,
  triplestore
)

Arguments

logic_operation

List of logical functions from the following set: "equals", "exclusive or", "not-or", "and-not", "or", "orn-not", "and", "not-and", "not".

seed_id

Integer (from 1 to 1000) or a vector of integer values. This integer is used for starting the pseudo-random number generator that represents the environment experiencing a digital organism. If seed_id value is not specified, it returns data for a single randomly chosen seed_id value (between 1 and 1000).

tandem_seq

Logical value (TRUE/FALSE) to show/hide this column (FALSE by default).

tandem_pos

Logical value (TRUE/FALSE) to show/hide this column (FALSE by default).

triplestore

Object of class triplestore_access which manages database access.

Value

Data frame. Columns: "seed_id" (optional), "tandem_id", "tandem_seq" (optional), "tandem_pos" (optional).

Examples

# Create triplestore object
avidaDB <- triplestore_access$new()

# Set access options
avidaDB$set_access_options(
  url = "https://graphdb.fortunalab.org",
  user = "public_avida",
  password = "public_avida",
  repository = "avidaDB_test"
)

# Single logic operation
get_tandem_id_from_logic_operation(
  logic_operation = "not",
  triplestore = avidaDB
)

# More than one logic operation
get_tandem_id_from_logic_operation(
  logic_operation = c("not", "and"),
  tandem_seq = TRUE,
  triplestore = avidaDB
)

# At seed_1 and seed_2
get_tandem_id_from_logic_operation(
  logic_operation = c("not", "and"),
  tandem_seq = TRUE,
  tandem_pos = TRUE,
  seed_id = c(1,2),
  triplestore = avidaDB
)