srs-to-srx

srs-to-srx converts a SRA sample accession (SRS) to corresponding SRA experiment accession (SRX).

Usage and options

$ pysradb srs-to-srx -h

Usage: pysradb srs-to-srx [OPTIONS] SRS_IDS...

  Get SRX for a SRS

Options:
  --saveto TEXT  Save output to file
  --detailed     Output additional columns: [run_accession, study_accession]
  -h, --help     Show this message and exit.

Convert SRA sample accession (SRS) to SRA experiment accession (SRX)

To convert a SRA sample accession of the form SRSmmmmm to its corresponding SRA experiment accession(s) of the form SRXnnnn:

$ pysradb srs-to-srx SRS718880

sample_accession experiment_accession
SRS718880        SRX729554

In order to obtain detailed metadata:

$ pysradb srs-to-srx --detailed SRP098789

Saving metadata to a file

pysradb follows a consistent pattern for providing an option to save output of any of its subcommands to a file using the --saveto argument:

$ pysradb srs-to-srx --detailed --saveto SRP098789_metadata.tsv SRP098789