Convert the co-ordinates of one assembly to another
Name | Type | Description | Default | Example Values |
---|---|---|---|---|
asm_one | String | Version of the input assembly | - |
GRCh37 |
asm_two | String | Version of the output assembly | - |
GRCh38 |
region | String | Query region | - |
X:1000000..1000100:1 X:1000000..1000100:-1 X:1000000..1000100 |
species | String | Species name/alias | - |
homo_sapiens human |
Name | Type | Description | Default | Example Values |
---|---|---|---|---|
callback | String | Name of the callback subroutine to be returned by the requested JSONP response. Required ONLY when using JSONP as the serialisation method. Please see the user guide. | - |
randomlygeneratedname |
coord_system | String | Name of the input coordinate system | chromosome |
chromosome |
target_coord_system | String | Name of the output coordinate system | chromosome |
chromosome |
- use strict;
- use warnings;
- use HTTP::Tiny;
- my $http = HTTP::Tiny->new();
- my $server = 'http://rest.ensembl.org';
- my $ext = '/map/human/GRCh37/X:1000000..1000100:1/GRCh38?';
- my $response = $http->get($server.$ext, {
- headers => { 'Content-type' => 'application/json' }
- });
- die "Failed!\n" unless $response->{success};
- use JSON;
- use Data::Dumper;
- if(length $response->{content}) {
- my $hash = decode_json($response->{content});
- local $Data::Dumper::Terse = 1;
- local $Data::Dumper::Indent = 1;
- print Dumper $hash;
- print "\n";
- }
- import requests, sys
- server = "http://rest.ensembl.org"
- ext = "/map/human/GRCh37/X:1000000..1000100:1/GRCh38?"
- r = requests.get(server+ext, headers={ "Content-Type" : "application/json"})
- if not r.ok:
- r.raise_for_status()
- sys.exit()
- decoded = r.json()
- print repr(decoded)
- import requests, sys
- server = "http://rest.ensembl.org"
- ext = "/map/human/GRCh37/X:1000000..1000100:1/GRCh38?"
- r = requests.get(server+ext, headers={ "Content-Type" : "application/json"})
- if not r.ok:
- r.raise_for_status()
- sys.exit()
- decoded = r.json()
- print(repr(decoded))
- require 'net/http'
- require 'uri'
- server='http://rest.ensembl.org'
- path = '/map/human/GRCh37/X:1000000..1000100:1/GRCh38?'
- url = URI.parse(server)
- http = Net::HTTP.new(url.host, url.port)
- request = Net::HTTP::Get.new(path, {'Content-Type' => 'application/json'})
- response = http.request(request)
- if response.code != "200"
- puts "Invalid response: #{response.code}"
- puts response.body
- exit
- end
- require 'rubygems'
- require 'json'
- require 'yaml'
- result = JSON.parse(response.body)
- puts YAML::dump(result)
- import java.net.URL;
- import java.net.URLConnection;
- import java.net.HttpURLConnection;
- import java.io.BufferedReader;
- import java.io.InputStream;
- import java.io.InputStreamReader;
- import java.io.IOException;
- import java.io.Reader;
- public class EnsemblRest {
- public static void main(String[] args) throws Exception {
- String server = "http://rest.ensembl.org";
- String ext = "/map/human/GRCh37/X:1000000..1000100:1/GRCh38?";
- URL url = new URL(server + ext);
- URLConnection connection = url.openConnection();
- HttpURLConnection httpConnection = (HttpURLConnection)connection;
- httpConnection.setRequestProperty("Content-Type", "application/json");
- InputStream response = connection.getInputStream();
- int responseCode = httpConnection.getResponseCode();
- if(responseCode != 200) {
- throw new RuntimeException("Response code was not 200. Detected response was "+responseCode);
- }
- String output;
- Reader reader = null;
- try {
- reader = new BufferedReader(new InputStreamReader(response, "UTF-8"));
- StringBuilder builder = new StringBuilder();
- char[] buffer = new char[8192];
- int read;
- while ((read = reader.read(buffer, 0, buffer.length)) > 0) {
- builder.append(buffer, 0, read);
- }
- output = builder.toString();
- }
- finally {
- if (reader != null) try {
- reader.close();
- } catch (IOException logOrIgnore) {
- logOrIgnore.printStackTrace();
- }
- }
- System.out.println(output);
- }
- }
- library(httr)
- library(jsonlite)
- library(xml2)
- server <- "http://rest.ensembl.org"
- ext <- "/map/human/GRCh37/X:1000000..1000100:1/GRCh38?"
- r <- GET(paste(server, ext, sep = ""), content_type("application/json"))
- stop_for_status(r)
- # use this if you get a simple nested list back, otherwise inspect its structure
- # head(data.frame(t(sapply(content(r),c))))
- head(fromJSON(toJSON(content(r))))
- curl 'http://rest.ensembl.org/map/human/GRCh37/X:1000000..1000100:1/GRCh38?' -H 'Content-type:application/json'
- wget -q --header='Content-type:application/json' 'http://rest.ensembl.org/map/human/GRCh37/X:1000000..1000100:1/GRCh38?' -O -
Methods | GET |
Response formats | json xml jsonp |