prok-gene
Convert Prokaryote Gene Report into TSV format
prok-gene
Convert Prokaryote Gene Report into TSV format
Name
dataformat tsv prok-gene - Convert Prokaryote Gene Report into TSV format
Synopsis
dataformat tsv prok-gene [flags]
Description
Convert Prokaryote Gene Report into TSV format.
Refer to NCBI’s download and install documentation for information about getting started with the command-line tools.
Examples
dataformat tsv prok-gene --inputfile prokaryote_package/ncbi_dataset/data/data_report.jsonl
dataformat tsv prok-gene --package prokaryote-package.zip
Options
--elide-header Do not output header
--fields strings Comma-separated list of fields
--force Force dataformat to run without type check prompt
-h, --help help for prok-gene
--inputfile string Input file (default "/dev/stdin")
--package string Data package (zip archive), inputfile parameter is relative to the root path inside the archive
Fields
| Mnemonic | Name |
|---|---|
| accession | Accession |
| description | Description |
| ec-number | EC Number |
| gene-symbol | Gene Symbol |
| mapping-count | Number of Genome Mappings |
| name-evidence-accession | Protein Name EvidenceAccession |
| name-evidence-category | Protein Name EvidenceCategory |
| name-evidence-source | Protein Name EvidenceSource |
| protein-length | Protein Length |
| protein-name | Protein Name |