Aligner must be set to a non false value for this to run. trim_reads Can be set to trim low quality ends or to also trim off, in conjunction with the adapters field a set of adapter sequences or poly-A tails that could appear on the ends of reads. Genome Res. 2011, 21: 961-973. 10.1101/gr.112326.110.PubMed CentralView ArticlePubMedGoogle ScholarKurtz S, Phillippy A, Delcher AL, Smoot M, Shumway M, Antonescu C, Salzberg SL: Versatile and open software for comparing large genomes. These are inputs into the training models for recalibration.