prok-gene-location

Convert Prokaryote Gene Location Report into TSV format

prok-gene-location

Convert Prokaryote Gene Location Report into TSV format

Name

dataformat tsv prok-gene-location - Convert Prokaryote Gene Location Report into TSV format

Synopsis

dataformat tsv prok-gene-location [flags]

Description

Convert Prokaryote Gene Location Report into TSV format.

Refer to NCBI’s command line start documentation for information about getting started with the command-line tools.

Examples

  dataformat tsv prok-gene-location --inputfile prokaryote_package/ncbi_dataset/data/annotation_report.jsonl
  dataformat tsv prok-gene-location --package prokaryote-package.zip

Options

      --elide-header       Do not output header
      --fields strings     comma-separated list of fields
  -h, --help               help for prok-gene-location
      --inputfile string   input file
      --package string     datasets package (zip archive), inputfile parameter is relative to the root path inside the archive

Fields

MnemonicName
chromosome_nameChromosome
completenessCompleteness
genbank-genomic-location-assembly-accessionGenBank Genomic Location Assembly Accession
genbank-genomic-location-seq-range-accessionGenBank Genomic Location Sequence Accession
genbank-genomic-location-seq-range-range-orientationGenBank Genomic Location Orientation
genbank-genomic-location-seq-range-range-startGenBank Genomic Location Start
genbank-genomic-location-seq-range-range-stopGenBank Genomic Location Stop
organism-common-nameOrganism Common Name
organism-organism-nameOrganism Organism Name
organism-pangolinOrganism Pangolin Classification
organism-strainOrganism Strain
organism-tax-idOrganism Taxonomic ID
protein-accessionProtein Accession
refseq-genomic-location-assembly-accessionRefSeq Genomic Location Assembly Accession
refseq-genomic-location-seq-range-accessionRefSeq Genomic Location Sequence Accession
refseq-genomic-location-seq-range-range-orientationRefSeq Genomic Location Orientation
refseq-genomic-location-seq-range-range-startRefSeq Genomic Location Start
refseq-genomic-location-seq-range-range-stopRefSeq Genomic Location Stop
Generated October 22, 2021