: In the downloader pop-up, select FASTQ to exclude other analysis files like BAMs or VCFs, then click Start Download .
: Click the checkbox next to the specific project or run you need to download.
Method 2: Using BaseSpace CLI (Recommended for Bioinformaticians)
: If prompted, install the BaseSpace Sequence Hub Downloader application, which manages the file transfer securely.
The web browser method is ideal for one-off downloads of specific runs or projects.
: Log in to BaseSpace and go to the Projects or Runs tab.
To download FASTQ files from , you can use the web-based Downloader for smaller projects or the Command Line Interface (CLI) for high-volume, automated workflows. Method 1: Using the BaseSpace Web Interface
: In the downloader pop-up, select FASTQ to exclude other analysis files like BAMs or VCFs, then click Start Download .
: Click the checkbox next to the specific project or run you need to download. download fastq files from basespace
Method 2: Using BaseSpace CLI (Recommended for Bioinformaticians) : In the downloader pop-up, select FASTQ to
: If prompted, install the BaseSpace Sequence Hub Downloader application, which manages the file transfer securely. : In the downloader pop-up
The web browser method is ideal for one-off downloads of specific runs or projects.
: Log in to BaseSpace and go to the Projects or Runs tab.
To download FASTQ files from , you can use the web-based Downloader for smaller projects or the Command Line Interface (CLI) for high-volume, automated workflows. Method 1: Using the BaseSpace Web Interface
