Nextflow pipeline to download FASTQ data from the NCBI SRA repository
Run with the command:
nextflow run FredHutch/nf-sra [OPTIONS]
To download a single SRA accession, use --sra .
To download an entire BioProject, use --bioproject .
In either case, use --output_folder to specify the location for the downloaded files. All files will be named for the SRA accession: .fastq.gz. Paired-end files will be interleaved.