CLC Cancer Research Workbench lets you import, trim and assemble DNA sequence reads from automated sequencing machines. A number of different formats are supported (see Bioinformatic data formats). This chapter explains the features in CLC Cancer Research Workbench for handling data analysis of low-throughput conventional Sanger sequencing data.
This chapter first explains how to trim sequence reads. Next follows a description of how to assemble reads into contigs both with and without a reference sequence. In the final section, the options for viewing and editing contigs are explained.
- Importing and viewing trace data
- Trim sequences
- Assemble sequences
- Sort sequences by name
- Assemble sequences to reference
- Add sequences to an existing contig
- View and edit read mappings
- Reassemble contig
- Secondary peak calling