Upload or paste reads for a control and a test sample (one sequence per line, or raw pasted FASTQ) and run Inchworm -> Chrysalis -> Butterfly -> Annotate -> Express to find differentially expressed transcripts. The pipeline itself is generic - any two samples work. The example loaded below simulates a control vs. a disease sample from real human STAT1 and GAPDH mRNA sequences, so STAT1 (a disease-associated gene) shows induction and GAPDH (a housekeeping gene) stays flat, matching the reference gene set the demo annotates against.