Fetch Data

Function: Validate the integrity of downloaded SRA data

Usage: vdb-validate [options] <path/file> [<path/file> ...]

Function: Extract multiple fasta records

Usage: faSomeRecords in.fa listFile out.fa

Function: Convert SRA data to sam format

Usage: sam-dump [options] <path/file> [<path/file> ...]

Function: Download SRA, dbGaP, and ADSP data from NCBI

Usage: prefetch [options] <path/SRA file | path/kart file> [<path/file> ...]

Function: Decrypt non-SRA dbGaP data ("phenotype data"). vdb-decrypt - decrypt a file or all the files (recursively) in a directory

Usage: vdb-decrypt [options] <source-file>

Function: Display and modify VDB configuration information

Usage: vdb-config [options] [<query>]

Function: Convert SRA data into Illumina native formats (qseq, etc.)

Usage: illumina-dump [options] <path/file> [<path/file> ...]

Function: This tool extracts reads from SRA archives

Usage: fastq-dump [options] <accession>

Function: Convert SRA data to sff format

Usage: sff-dump [options] <path/file> [<path/file> ...]

Function: Decrypt non-SRA dbGaP data ("phenotype data")

Usage: vdb-decrypt [options] <directory>

Function: Decrypt non-SRA dbGaP data ("phenotype data")

Usage: vdb-decrypt [options] <source-file> <destination-directory>

Function: Convert SRA data into ABI format (csfasta / qual)

Usage: abi-dump [options] <path/file> [<path/file> ...]

Function: Convert SRA data to sff format

Usage: sff-dump [options] <accession>

Function: Validate the integrity of downloaded SRA data

Usage: vdb-validate [options] <accession>

Function: The non-interactive network downloader

Usage: wget [option]... [URL]...