genome-seq

Convert Genome Assembly Sequence Report into TSV format

genome-seq

Convert Genome Assembly Sequence Report into TSV format

Name

dataformat tsv genome-seq - Convert Genome Assembly Sequence Report into TSV format

Synopsis

dataformat tsv genome-seq [flags]

Description

Convert Genome Assembly Sequence 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 genome-seq --inputfile human_package/ncbi_dataset/data/GCF_000001405.39/sequence_report.jsonl
  dataformat tsv genome-seq --package human.zip --inputfile GCF_000001405.39/sequence_report.jsonl

Options

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

Fields

MnemonicName
assm-unit-accAssembly-unit accession
chr-nameChromosome name
gc-countGC Count
genbank-seq-accGenBank seq accession
mol-typeMolecule type
orderingOrdering
refseq-seq-accRefSeq seq accession
seq-lengthSeq length
ucsc-style-nameUCSC style name
Generated October 14, 2021