RNAsec of Patient 3: human female
Raw images generated by the sequencer are submitted to analysis, per-cycle basecalling and quality score assignment with Illumina's Real Time Analysis integrated primary analysis software (RTA v2). Conversion of BCL (base calls) binary files to FASTQ format is subsequently performed with bcl2fastq2 from within Local Run Manager (Illumina).  Fastq represents each sequence read by four lines (Sequence identifier, Sequence, Quality score identifier line and Quality score). Qscores are formatted in the standard Sanger encoding (ASCII with offset of 33).