all_entities_ContigSequence
Return all instances of the ContigSequence entity.
ContigSequences are strings of DNA. Contigs have an associated genome, but ContigSequences do not.. We can think of random samples of DNA as a set of ContigSequences. There are no length constraints imposed on ContigSequences -- they can be either very short or very long. The basic unit of data that is moved to/from the database is the ContigChunk, from which ContigSequences are formed. The key of a ContigSequence is the sequence's MD5 identifier.
Example:
all_entities_ContigSequence -a would retrieve all entities of type ContigSequence and include all fields in the entities in the output.
Related entities
The ContigSequence entity has the following relationship links:
Command-Line Options
- -a
-
Return all fields.
- -h
-
Display a list of the fields available for use.
- -fields field-list
-
Choose a set of fields to return. Field-list is a comma-separated list of strings. The following fields are available:
- length
Output Format
The standard output is a tab-delimited file. It consists of the input file with an extra column added for each requested field. Input lines that cannot be extended are written to stderr.