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Adapter Removal

Supported Tool

Removes adapter sequences and trims low quality bases from the 3' end of reads. Overlapping paired-ended reads can be merged into consensus sequences and adapter sequence can be found for paired-ended data if not known.


This program searches for and removes remnant adapter sequences from High-Throughput Sequencing (HTS) data and (optionally) trims low quality bases from the 3’ end of reads following adapter removal. AdapterRemoval can analyze both single end and paired end data, and can be used to merge overlapping paired-ended reads into (longer) consensus sequences. Additionally, the AdapterRemoval may be used to recover a consensus adapter sequence for paired-ended data, for which this information is not available.

The adapterRemoval module parses *.settings logs generated by Adapter Removal, a tool for rapid adapter trimming, identification, and read merging.

supported setting file results:

  • single end
  • paired end noncollapsed
  • paired end collapsed

File search patterns

  fn: "*.settings"
  contents: AdapterRemoval
  num_lines: 1