We are using reliable and effective SNP/InDel search algorithm
without taking into consideration trace files.
Our custom pipeline to find SNP/InDel candidates is written in Python.
Detailed instructions and source code are available at:
Then we visualize and validate candidates using Python Contig Viewer:
Contig Viewer provides semiautomatic oligo design for PCR.
Feedback and comments are very welcome.
Department of Vegetable Crops,
University of California, Davis