genome-seq

Convert Genome Assembly Sequence Report into TSV format

Contents

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

Mnemonic	Name
assm-unit-acc	Assembly-unit accession
chr-name	Chromosome name
genbank-seq-acc	GenBank seq accession
mol-type	Molecule type
ordering	Ordering
refseq-seq-acc	RefSeq seq accession
seq-length	Seq length
ucsc-style-name	UCSC style name

Generated April 23, 2021