Hippie entry name to uniprot ID

README.md

Prerequisites:

Node.js has to be installed. Also parsjs (get it via npm i -g parsjs).

Steps:

1. Download latest hippie release (the TAB version)
2. Run parsjs -n -s hippie_current hippie_current.txt
3. Run node unique.js
4. Copy the content of current_hippie_identifiers.txt on the uniprot mapping service (https://www.uniprot.org/mapping/)
5. From the columns, deselect everything except 'entry' and 'entry name'
6. Download in TSV format, call file 'DOWNLOADED.tab' and place in directory with the scripts
7. Run parsjs -s mapping DOWNLOADED.tab
8. Run node convert.js

You should now have hippie_current_uniprotID.json and hippie_unidentifiable.txt, the latter tells you which IDs couldn't be mapped.

convert.js

const mapping = require('./mapping.json');
const hippie = require('./hippie_current.json');
const fs = require('fs');

let unidentifiable = [];
let map = {};

mapping.forEach(e => map[e['entry name']] = e['entry']);

let result = hippie.map(e => {
	let r = {...e};
	let match1 = map[e['val0']];
	if(match1 === undefined){
		unidentifiable.push(e['val0']);
		r['val0'] = undefined;
	} else {
		r['val0'] = match1;
	}

	let match2 = map[e['val2']];
	if(match2 === undefined){
		unidentifiable.push(e['val2']);
		r['val2'] = undefined;
	} else {
		r['val2'] = match2;
	}

	return r;
});

let uniqueUnidentifiable = new Set(unidentifiable);

let noNullResults = result.filter(e => e['val0'] !== undefined && e['val2'] !== undefined);

fs.writeFile("hippie_current_uniprotID.json", JSON.stringify(noNullResults), function(err) {
    if (err) {
        console.log(err);
    }
});

fs.writeFile("hippie_unidentifiable.txt", [...uniqueUnidentifiable].join("\n"), function(err) {
    if (err) {
        console.log(err);
    }
});

unique.js

const fs = require('fs');
const hippie = require('./hippie_current.json');


let val0 = hippie.map(e => e['val0']);
let val2 = hippie.map(e => e['val2']);

let unique = new Set([... val0,... val2]);

fs.writeFile("current_hippie_identifiers.txt", [... unique].join("\n"), function(err) {
    if (err) {
        console.log(err);
    }
});