title: RNA-Seq of Clostridium difficile in vivo
design: samples were blinded and converted into a library capable of cluster generation and sequencing using the TruSeq Stranded mRNA Library Prep kit (Illumina cat # RS-122-2001, RS-122-2001) per the supplier s protocol. Libraries were checked for size on the TapeStation and quantified using the Kapa Biosystems library quantification kit (catalog # KK4835) for Illumina adapters.