USAGE:
mgend-rdf [FLAGS] <input> --assembly <assembly> --directory <directory> --format <format> --hgnc <hgnc>
FLAGS:
-h, --help Prints help information
--rehearsal Process only one line
-V, --version Prints version information
OPTIONS:
--assembly <assembly> Assembly [possible values: GRCh37, GRCh38]
--directory <directory> Path to output directory
--format <format> Output format [possible values: jsonld, turtle]
--hgnc <hgnc> Path to hgnc_complete_set.txt (wget
ftp://ftp.ebi.ac.uk/pub/databases/genenames/new/tsv/hgnc_complete_set.txt)
ARGS:
<input> Path to input file [*.tsv | *.tsv.gz]
-
Obtain
hgnc_complete_set.txt$ wget ftp://ftp.ebi.ac.uk/pub/databases/genenames/new/tsv/hgnc_complete_set.txt -
Run converter
$ mgend-rdf --assembly GRCh38 --format turtle --hgnc hgnc_complete_set.txt --directory output MGeND_hg38.tsv.gz
Prerequisites
- rustup
$ git clone https://github.com/med2rdf/mgend.git
$ cargo build --release
$ ./target/release/mgend-rdf --help