After you are satisfied with your trained, and optionally, tested, model, you can use the model to analyze patient samples. As with control samples for a model, patient samples can be raw data files (.fasta, .fastq, or .fq files) or aligned data files (.bam files).If the files are BAM files, then they must be aligned to a Build 37 reference. You can run one a single analysis at a time or you can run multiple analyses at the same time. If you run multiple analyses, then the NextGENe SAD tool creates a processing queue for each analysis and the analyses are carried in the order that you initiated them in the tool.