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pwma_demo_simple.html
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pwma_demo_simple.html
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<!DOCTYPE html>
<html lang="en">
<head>
<meta charset="UTF-8">
<meta http-equiv="X-UA-Compatible" content="IE=edge">
<meta name="viewport" content="width=device-width, initial-scale=1.0">
<link rel="shortcut icon" href="./favicon.ico">
<title>Meta.js Test</title>
<link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.15.3/css/all.min.css" />
<style>
html,body {
width: 100%;
height: 100%;
font-size: 14px;
overflow-x: hidden;
}
p {
margin: 0.5em 0;
}
.mb-1 {
margin-bottom: 1em;
}
.tb-result {
padding: 2px 0;
}
.tb-result th {
border-top: 2px solid #cccccc;
border-bottom: 2px solid #cccccc;
padding: 0px 5px;
}
.tb-result td {
border-bottom: 1px solid #efefef;
border-right: 1px solid #efefef;
text-align: center;
padding: 0px 5px;
}
.param-list {
padding: 1px;
}
.param-key {
padding: 1px 5px;
background: #dfdfdf;
border-bottom: 1px solid #dfdfdf;
text-align: center;
}
.param-val {
padding: 1px 3px;
border-bottom: 1px solid #dfdfdf;
text-align: center;
font-style: italic;
}
/* a start screen for IE and hiding init */
#start-screen {
position: absolute;
top: 0;
left: 0;
width: 100%;
height: 100%;
z-index: 9999;
background: white;
display: flex;
flex-direction: column;
justify-content: center;
align-items: center;
}
#ss-msg {
width: 100%;
padding: 10px 0;
text-align: center;
}
</style>
</head>
<body>
<div id="start-screen">
<h1>
<i class="fas fa-calculator"></i>
Meta.js Demonstration
</h1>
<div id="ss-msg">Initializing User Interface ...</div>
</div>
<p>
<b>
Meta.js Demonstration
</b> |
More information:
<a target="_blank" href="https://github.com/OHNLP/Meta.js">
<i class="fab fa-github"></i>
GitHub
</a>
</p>
<div id="app_test"
style="display: flex; flex-direction: row;">
<fieldset>
<legend>DATA</legend>
<div v-if="n_ocs == null">
<p>
Please wait for loading data ...
</p>
</div>
<div v-else>
<h2>
Small Sample CSV
</h2>
<div class="mb-1">
<p>A sample outcome with binary data</p>
<textarea id="sample_txt"
cols="50"
rows="11"
v-model="sample_txt"></textarea>
<br>
<button v-on:click="run_sample">
Run PMA
</button>
|
<button v-on:click="make_sample">
Make random sample
</button>
</div>
<h2>
Random Samples
</h2>
<div class="mb-1">
<button v-on:click="demo(100)">
Run PMA on random 100 outcomes
</button>
</div>
<hr>
<h2>
Performance Test
</h2>
<p v-if="is_testing" style="max-width: 300px;">
Details are outputed in console during testing.
<br>
For Chrome browser, press "Ctrl + Shift + I" on Windows, or "Cmd + Opt + I" on MacOS to open console.
</p>
<div class="mb-1">
<button v-on:click="run_tests_topn(1000)"
v-bind:disabled="is_testing">
<span v-if="is_testing">
Running test ...
</span>
<span v-else>
Run PMA of 1,000 outcomes
</span>
</button>
</div>
<div class="mb-1">
<button v-on:click="run_tests_rounds()"
:disabled="is_testing">
<span v-if="is_testing">
Running test ...
</span>
<span v-else>
Run 1,000 to 10,000 outcomes
</span>
</button>
</div>
<div>
<input type="text"
:disabled="is_testing"
style="width: 30px"
v-model.number="n_times">
<button v-on:click="run_tests_random(10)"
:disabled="is_testing">
<span v-if="is_testing">
Running test ...
</span>
<span v-else>
Run {{ n_times }} times of PMA of 1,000 outcomes
</span>
</button>
</div>
</div>
</fieldset>
<fieldset>
<legend>RESULTS</legend>
<p v-if="dur == null">
</p>
<p v-else>
It takes <b>{{ tf4(dur) }}</b> seconds to calculate {{ results.length }} outcomes
</p>
<div v-if="results.length > 0"
style="display: flex; flex-direction: column; flex-wrap: wrap;">
<p>
Settings:
</p>
<div class="mb-1"
style="display: flex; flex-direction: row; flex-wrap: wrap;">
<div v-for="val, key in results[0].res.params"
class="param-list">
<div class="param-key">
{{ key }}
</div>
<div class="param-val">
{{ val }}
</div>
</div>
</div>
<p>
Results:
</p>
<table v-for="r in results"
class="mb-1 tb-result">
<tr>
<th>Study ({{r.oc.length }} studies)</th>
<th>Et</th>
<th>Nt</th>
<th>Ec</th>
<th>Nc</th>
<th>Treatment</th>
<th>Control</th>
<th>Odds Ratio</th>
<th>Lower, Upper</th>
<th>Weight</th>
</tr>
<tr v-for="stu, stu_idx in r.oc">
<td>{{ stu[4] }}</td>
<td>{{ stu[0] }}</td>
<td>{{ stu[1] }}</td>
<td>{{ stu[2] }}</td>
<td>{{ stu[3] }}</td>
<td>{{ stu[5] }}</td>
<td>{{ stu[6] }}</td>
<td>{{ tf2(r.res.SM[stu_idx]) }}</td>
<td>
{{ tf2(r.res.SM_lower[stu_idx]) }},
{{ tf2(r.res.SM_upper[stu_idx]) }}
</td>
<td>
{{ tf2(r.res.fixed.wp[stu_idx] * 100) }}%
</td>
</tr>
<tr>
<td colspan="7">
<b>Fixed Effect Model</b>
</td>
<td>
{{ tf2(r.res.fixed.SM) }}
</td>
<td>
(
{{ tf2(r.res.fixed.SM_lower) }},
{{ tf2(r.res.fixed.SM_upper) }}
)
</td>
<td>
100%
</td>
</tr>
<tr>
<td colspan="7">
Heterogeneity:
</td>
<td>
I<sup>2</sup>={{ tf2(r.res.heterogeneity.I2*100) }}%
</td>
<td>
Tau<sup>2</sup>={{ tf4(r.res.heterogeneity.tau2) }}
</td>
<td>
<span v-if="r.res.heterogeneity.pval_Q < 0.01">
<i>p</i> < 0.01
</span>
<span v-else>
<i>p</i>={{ tf2(r.res.heterogeneity.pval_Q) }}
</span>
</td>
</tr>
</table>
</div>
<div v-else-if="log.length > 0">
<table class="tb-result">
<tr>
<th>Number of outcomes</th>
<th>Time (seconds)</th>
</tr>
<tr v-for="r in log">
<td>{{ r.n }}</td>
<td>{{ tf4(r.dur) }}</td>
</tr>
</table>
</div>
</fieldset>
</div>
<script src="https://cdnjs.cloudflare.com/ajax/libs/PapaParse/5.3.1/papaparse.min.js"></script>
<script src="https://cdnjs.cloudflare.com/ajax/libs/jquery/3.6.0/jquery.min.js"></script>
<script src="https://cdn.jsdelivr.net/npm/[email protected]/dist/echarts.min.js"></script>
<script src="https://cdnjs.cloudflare.com/ajax/libs/vue/2.6.14/vue.min.js"></script>
<script src="https://cdn.jsdelivr.net/gh/nicolaspanel/[email protected]/dist/numjs.min.js"></script>
<script src="https://cdnjs.cloudflare.com/ajax/libs/mathjs/10.1.1/math.min.js"></script>
<!-- load meta.js -->
<script src="./dist/meta-0.0.1.js"></script>
<script>
function get_browser() {
var ua = navigator.userAgent,tem,M=ua.match(/(opera|chrome|safari|firefox|msie|trident(?=\/))\/?\s*(\d+)/i) || [];
if(/trident/i.test(M[1])){
tem=/\brv[ :]+(\d+)/g.exec(ua) || [];
return {name:'IE',version:(tem[1]||'')};
}
if(M[1]==='Chrome'){
tem=ua.match(/\bOPR|Edge\/(\d+)/)
if(tem!=null) {return {name:'Opera', version:tem[1]};}
}
M=M[2]? [M[1], M[2]]: [navigator.appName, navigator.appVersion, '-?'];
if((tem=ua.match(/version\/(\d+)/i))!=null) {M.splice(1,1,tem[1]);}
return {
name: M[0],
version: M[1]
};
}
var _browser = get_browser();
var isIE = /*@cc_on!@*/false || !!document.documentMode;
var isCHROME = _browser.name == 'Chrome';
var isSAFARI = _browser.name == 'Safari';
var isFIREFOX = _browser.name == 'Firefox';
var app_test = {
vpp: null,
vpp_id: '#app_test',
ocs: [],
init: function() {
this.vpp = new Vue({
el: this.vpp_id,
data: {
n_ocs: null,
// sample
sample_txt: 'study,Et,Nt,Ec,Nc,treatment,control\nARCHES24,139,572,147,574,Treat,Placebo\nENZAMET7,321,563,241,558,Treat,Placebo\nLATITUDE,411,597,309,602,Treat,Placebo\nSTAMPEDE,288,592,399,1184,Treat,Placebo\nCHKMT154,155,422,287,1072,Treat,Placebo\nTXNMRX23,223,531,280,588,Treat,Placebo\nQWERTXBN,198,401,220,420,Treat,Placebo\nTUXSWX09,252,531,314,707,Treat,Placebo\nPROTE002,353,662,505,888,Treat,Placebo\nATLASTX2,364,703,236,629,Treat,Placebo',
// the log of tests
log: [],
// duration of calculation
dur: null,
// flag
is_testing: false,
// the n_times
n_times: 10,
// results
results: []
},
methods: {
run_sample: function() {
this.clear();
// split text
var lines = this.sample_txt.split('\n');
Papa.parse(this.sample_txt, {
header: true,
complete: function(rs) {
console.log(rs);
// parse outcomes
var outcome = [];
for (let i = 0; i < rs.data.length; i++) {
const r = rs.data[i];
outcome.push([
parseInt(r.Et),
parseInt(r.Nt),
parseInt(r.Ec),
parseInt(r.Nc),
r.study, r.treatment, r.control
]);
}
// now do ma
var ret = app_test.run_pma([outcome]);
// show
app_test.vpp.$data.results = ret.results;
app_test.vpp.$data.dur = ret.dur;
}
})
},
make_sample: function() {
var sample = [
'study,Et,Nt,Ec,Nc,treatment,control'
];
var n = math.randomInt(2, 40);
for (let i = 0; i < n; i++) {
var et = math.randomInt(0, 100);
var nt = math.randomInt(1, 100) + et;
var ec = math.randomInt(0, 100);
var nc = math.randomInt(1, 100) + ec;
var study = math.random().toString(36).slice(7).toLocaleUpperCase();
sample.push(
[study, et, nt, ec, nc, 'Treat', 'Placebo'].map(v=>''+v).join(',')
);
}
sample = sample.join('\n');
this.sample_txt = sample;
},
demo: function(n) {
this.clear();
var idxes = math.pickRandom(Array.from(Array(10000).keys()), n);
var ret = app_test.run_tests_idxes(idxes);
// bind results
this.results = ret.results;
this.dur = ret.dur;
},
clear: function() {
// clear log
this.log = [];
// clear dur
this.dur = null;
// clear results
this.results = [];
},
run_tests_topn: function(n) {
this.clear();
this.is_testing = true;
setTimeout('app_test.run_tests_topn('+n+');app_test.vpp.$data.is_testing = false;', 500);
},
run_tests_rounds: function() {
this.clear();
this.is_testing = true;
setTimeout('app_test.run_tests_rounds();app_test.vpp.$data.is_testing = false;', 500);
},
run_tests_random: function(n) {
this.clear();
this.is_testing = true;
setTimeout('app_test.run_tests_random('+this.n_times+');app_test.vpp.$data.is_testing = false;', 500);
},
tf2(v) {
return v.toFixed(2);
},
tf4(v) {
return v.toFixed(4);
}
}
});
},
run_pma: function(outcomes) {
var results = [];
const t0 = performance.now();
for (let i = 0; i < outcomes.length; i++) {
const outcome = outcomes[i];
var res = metajs.metabin(
outcome,
{}
);
// save the res
results.push({
oc: outcome,
res: res
});
}
const t1 = performance.now();
const dur = (t1 - t0) / 1000;
return {
dur: dur,
results: results
};
},
run_tests_idxes: function(idxes) {
var results = [];
const t0 = performance.now();
for (let i = 0; i < idxes.length; i++) {
// get the MA result
var res = metajs.metabin(
this.ocs[idxes[i]]
);
// save the res
results.push({
oc: this.ocs[idxes[i]],
res: res
});
}
const t1 = performance.now();
const dur = (t1 - t0) / 1000;
return {
dur: dur,
results: results
};
},
run_tests_topn: function(n) {
var results = [];
// start to count
const t0 = performance.now();
for (let i = 0; i < n; i++) {
var res = metajs.metabin(
this.ocs[i]
);
results.push(res);
}
const t1 = performance.now();
// ok, that's how long it takes
const dur = (t1 - t0) / 1000;
console.log('' + n + ',' + dur + '');
// update the log in app
app_test.vpp.$data.log.push(
{n: n, dur: dur}
);
// app_test.vpp.$forceUpdate();
},
run_tests_rounds: function() {
for (let n = 1000; n <= 10000; n+=1000) {
this.run_tests_topn(n);
}
},
run_tests_random: function(n_times) {
var n = 1000;
for (let i = 0; i < n_times; i++) {
// pick random 1000 numbers
var nums = math.pickRandom(Array.from(Array(10000).keys()), n);
var results = [];
const t0 = performance.now();
for (let i = 0; i < nums.length; i++) {
var res = metajs.metabin(
this.ocs[nums[i]]
);
}
const t1 = performance.now();
// ok, that's how long it takes
const dur = (t1 - t0) / 1000;
console.log('' + i + ',' + dur + '');
app_test.vpp.$data.log.push(
{n: n, dur: dur}
);
// app_test.vpp.$forceUpdate();
}
}
};
var jarvis = {
rs: null,
ssmsg: function(msg) {
$('#ss-msg').html(msg);
},
ssclose: function() {
$('#start-screen').hide();
},
init: function() {
// init the app first
app_test.init();
// load data
Papa.parse("./testsets/sample.csv", {
download: true,
header: true,
complete: function(rs) {
console.log(rs);
// bind data
jarvis.rs = rs;
// parse outcomes
var outcomes = {};
for (let i = 0; i < rs.data.length; i++) {
const r = rs.data[i];
if (!outcomes.hasOwnProperty(r.outcome)) {
outcomes[r.outcome] = [];
}
outcomes[r.outcome].push([
parseInt(r.Et),
parseInt(r.Nt),
parseInt(r.Ec),
parseInt(r.Nc),
r.study, r.treatment, r.control
]);
}
outcomes = Object.values(outcomes);
// set the data
app_test.ocs = outcomes;
app_test.vpp.$data.n_ocs = outcomes.length;
}
});
// ok, show the UI
if (!isCHROME) {
var msg = 'The performance of calculation is affected by the JavaScript engine significantly, we recommend you to use <a href="https://v8.dev" target="_blank">V8</a> based web browser.<br>' +
'Try using latest <a target="_blank" href="https://www.google.com/chrome/">Google Chrome</a> or other <a target="_blank" href="https://download-chromium.appspot.com/">Chromium</a> based browsers (e.g., <a target="_blank" href="https://www.microsoft.com/en-us/edge">Microsoft Edge</a>, <a target="_blank" href="https://vivaldi.com/">Vivaldi</a>) to get best performance.<br> '+
'<a style="font-size:1.5em;" href="javascript:void(0);" onclick="jarvis.ssclose()">Continue to use <i class="fa fa-arrow-alt-circle-right"></i></a>';
jarvis.ssmsg(msg);
} else {
jarvis.ssmsg('Initialized');
setTimeout("jarvis.ssclose();", 1000);
}
}
};
$(document).ready(function() {
jarvis.init();
});
</script>
</body>
</html>