InferENA

InferENA is a Snakemake pipeline that downloads RNA-Seq data in FASTQ format from European Nucleotide Archive (ENA) and infers library type using Salmon. Sequencing reads are downloaded via aspera client (high-speed data transfer) based on the following tutorial. Additionally, most plausable adapters are inferred by subsetting reads from the FASTQ files and performing a naive grep search against an internal database of known adapter sequences.