p3-get-genome-data

Return Data From Genomes in BV-BRC

p3-get-genome-data [options]

This script returns data about the genomes identified in the standard input. It supports standard filtering parameters and the specification of additional columns if desired.

Parameters

There are no positional parameters.

The standard input can be overriddn using the options in Input Options.

Additional command-line options are those given in Data Options and Column Options plus the following.

• fields

List the available field names.

Example

This command is shown in the tutorial p3_CLI.html

p3-all-genomes –eq genome_name,Streptomyces | p3-get-genome-data –attr genome_name –attr contigs –attr genome_length

genome.genome_id    genome.genome_name  genome.contigs  genome.genome_length
284037.4    Streptomyces sporocinereus strain OsiSh-2   125 10242506
67257.17    Streptomyces albus subsp. albus strain NRRL F-4371  307 9246299
68042.5 Streptomyces hygroscopicus subsp. hygroscopicus strain NBRC 16556   133 10141569
68042.6 Streptomyces hygroscopicus subsp. hygroscopicus strain NBRC 13472   680 9464604
1395572.3   Streptomyces albulus PD-1   425 9340057
...