2.0

Changes

• commands now need to prefixed with sam or fastq depending on the type of input file
• fastq commands accept one single-end or two paired-end files
• fastq commands have --threads option to using system pigz (if available) to speed up writing
• better fastq singleton filtering that accounts for the source of a barcode being one single-end or two paired-end reads
• downsample renamed sample

Full Changelog: 1.1...2.0