fastqAnalyze ~~~~~~ :: usage: fastqAnalyze [-stats] [-o output.fastq] input.fastq If no options are given, input.fastq is analyzed and a best guess for the QV encoding is output. Otherwise, the QV encoding is converted to Sanger-style using this guess. In some cases, the encoding cannot be determined. When this occurs, no guess is output. For conversion, you can force the input QV type with: -solexa input QV is solexa -illumina input QV is illumina -sanger input QV is sanger -o sanger-style-output.fastq If -stats is supplied, no QV analysis or conversion is performed, but some simple statistics are computed and output to stdout.