prok-gene-location

Convert Prokaryote Gene Location Report into an Excel workbook

prok-gene-location

Convert Prokaryote Gene Location Report into an Excel workbook

Name

dataformat excel prok-gene-location - Convert Prokaryote Gene Location Report into an Excel workbook

Synopsis

dataformat excel prok-gene-location [flags]

Description

Convert Prokaryote Gene Location Report into an Excel workbook.

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

Examples

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

Options

      --fields strings      comma-separated list of fields
  -h, --help                help for prok-gene-location
      --inputfile string    input file
  -o, --outputfile string   Excel workbook 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