The analysis of a single set of FASTQ files (~250,000 reads, or 50-100MB data) typically takes less than an hour. Larger samples can vary considerably, but typically take between 1.5-3 hours, depending on the library complexity, number of reads, and analysis options chosen. Some samples of around 3 million reads can take upwards of 7-8 hours; this is largely driven by significantly greater than normal library complexity.
By default, the VM runs each sample serially, but the system can be set up to process multiple samples at the same time. Consult the Archer Analysis User Guide for instructions on setting up Archer Analysis for parallel processing of samples.
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