GAE is tailored towards pre-interpretation processing of raw sequencing data. It includes alignment of raw reads to the reference genome followed by alignment refining and identification of duplicate reads. Our standard GAE workflow is summarized below.
We understand that one solution does not fit all so we have designed GAE to accommodate custom workflows. You can specify the tools and the order in which they are run. If you don’t find your favorite algorithm, we can custom design the Bioinformatics Solutions that fit your needs.
Upon successful completion of GAE workflow, you will have the alignment file in Binary Sequence Alignment/Map (BAM) format and variant calls in Variant Call Format (VCF). At this point, you may choose to download the data for further processing with your algorithms. Alternatively, you may use our Genome Interpretation Engine (GIE) - a comprehensive web interface that displays seamless integration of the raw data to a wide variety of annotation resources that aid in interpretation of your sequencing results.