Many of our users are familiar with the ability of Sequencher to semi-automatically trim poor quality sequences from the ends of Sanger ABI reads. Although it is generally not necessary to do this in MacVector because most of the algorithms can automatically handle poor quality data, there are times when it can be beneficial. So MacVector has a Quality Trimming function that removes residues from the ends of Sanger reads that fall below a configurable quality threshold. You can invoke this in either the Align to Reference or Assembly Project windows by clicking on a new Qual Trim toolbar button.
This opens a setup dialog letting you determine how the reads should be trimmed.
The trimmed residues are normally shown greyed out.
But can be completely hidden by clicking on the Trimmed toggle toolbar button.
