buildConfig: Builds the overlapping or non-overlapping production configs

In philliplab/MotifBinner2: Processes NGS Primer ID Datasets

Description

Builds the overlapping or non-overlapping production configs

Usage

buildConfig(
  overlapping,
  fwd_file,
  fwd_primer_seq,
  fwd_primer_lens,
  fwd_min_score,
  rev_file,
  rev_primer_seq,
  rev_primer_lens,
  rev_min_score,
  fwd_pid_in_which_fragment,
  rev_pid_in_which_fragment,
  max_seq = NULL,
  min_read_length = 295,
  pattern_to_chop_from_names = " [0-9]:N:[0-9]*:[0-9]*$",
  output_dir = "/fridge/data/MotifBinner2_test",
  base_for_names = "CAP129_2040_009wpi_C2C3",
  intermediate_reports = TRUE,
  erase_history = FALSE,
  verbosity = 3,
  report_type = c("html"),
  ncpu = 4,
  bins_to_process = Inf,
  merged_read_length = 100,
  header_format = "MiSeq",
  front_gaps_allowed = 0
)

philliplab/MotifBinner2 documentation built on Sept. 8, 2020, 12:09 a.m.