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Onboarding

OH MY GOODNESS! You're here! You're really here!

How cool is that?! ✨ 🎈 🍰

This is your jumping off point to get you up and running with your work in (or collaboration with) the Whitaker Lab.

(It's currently a work in progress...I really hope you can shape and improve this onboarding experience as you learn!)

Why onboarding

You're a person! (So am I!) We're social creatures (to varying degrees.) The traditional first day practice of giving new lab members a pile of papers and say "go read these and understand them" is rather isolating. It's difficult to read scientific papers in a field you don't know, and possibly isn't the best use of your first few days and weeks.

In this repository we're going to work through some tutorials, blogging exercises, reproducing some figures from papers and....so much more 😉.

Your first day

Blogging exercises

One of the most useful ways for me (Kirstie) to follow along with your progress is to read blog post summaries of what you've been working on. It's also a great way to share our work with others!

  1. Meet 3 people at the Turing Institute
  2. Blog about some code
  3. ??
  4. Goal setting

Keep pushing

The only mandatory reading for this onboarding is Matt Might'sIllustrated Guide to a PhD. It's a beautiful description of the frustration and wonder of conducting reasearch. Don't forget, whenever things are hard, keep pushing.

About

This repository contains the onboarding resources and exercises that are recommended for when you join the Whitaker Lab.

Resources

Readme
MIT license

Code of conduct

Code of conduct
Activity

Stars

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Watchers

0 watching

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, 'i'); if (__m === '*' || __re.test(location.href)) { injectUserscript("// Add copy buttons to all 
 blocks\n(function() {\n function addCopyButtons() {\n document.querySelectorAll('pre code').forEach(function(codeBlock) {\n if (codeBlock.parentElement.hasAttribute('data-copy-added')) return;\n codeBlock.parentElement.setAttribute('data-copy-added', 'true');\n \n var btn = document.createElement('button');\n btn.textContent = 'Copy';\n btn.style.cssText = 'position:absolute;top:4px;right:4px;padding:2px 8px;font-size:11px;background:#4ecdc4;border:none;border-radius:4px;color:#1a1a2e;cursor:pointer;opacity:0.7;transition:opacity 0.2s;';\n btn.onmouseover = function() { this.style.opacity = '1'; };\n btn.onmouseout = function() { this.style.opacity = '0.7'; };\n btn.onclick = function() {\n navigator.clipboard.writeText(codeBlock.textContent).then(function() {\n btn.textContent = 'Copied!';\n setTimeout(function() { btn.textContent = 'Copy'; }, 1500);\n });\n };\n codeBlock.parentElement.style.position = 'relative';\n codeBlock.parentElement.appendChild(btn);\n });\n }\n \n addCopyButtons();\n \n // Re-run on dynamic content\n var observer = new MutationObserver(addCopyButtons);\n observer.observe(document.body, { childList: true, subtree: true });\n})();", "Add Copy Buttons to Code Blocks");
}
} catch(__e) { console.warn('[Userscript:Add Copy Buttons to Code Blocks]', __e); }
})();
(function(){
try {
var __m = "github.com";
var __re = new RegExp('^' + "github\\.com" + '

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Onboarding
OH MY GOODNESS! You're here! You're really here!
How cool is that?! ✨ 🎈 🍰
This is your jumping off point to get you up and running with your work in (or collaboration with) the Whitaker Lab.
(It's currently a work in progress...I really hope you can shape and improve this onboarding experience as you learn!)
Why onboarding
You're a person! (So am I!) We're social creatures (to varying degrees.) The traditional first day practice of giving new lab members a pile of papers and say "go read these and understand them" is rather isolating. It's difficult to read scientific papers in a field you don't know, and possibly isn't the best use of your first few days and weeks.
In this repository we're going to work through some tutorials, blogging exercises, reproducing some figures from papers and....so much more 😉.
Your first day
Blogging exercises
One of the most useful ways for me (Kirstie) to follow along with your progress is to read blog post summaries of what you've been working on. It's also a great way to share our work with others!
  1. Meet 3 people at the Turing Institute
  2. Blog about some code
  3. ??
  4. Goal setting
Keep pushing
The only mandatory reading for this onboarding is Matt Might'sIllustrated Guide to a PhD. It's a beautiful description of the frustration and wonder of conducting reasearch. Don't forget, whenever things are hard, keep pushing.
About
This repository contains the onboarding resources and exercises that are recommended for when you join the Whitaker Lab.
Resources
Readme
MIT license
Code of conduct
Code of conduct
Activity
Stars
0 stars
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, 'i');
if (__m === '*' || __re.test(location.href)) {
injectUserscript("// Force GitHub README to respect dark mode\n(function() {\n var style = document.createElement('style');\n style.textContent = '\n .markdown-body {\n color-scheme: dark light;\n }\n .markdown-body pre { background: #161b22 !important; }\n .markdown-body code { background: rgba(110, 118, 129, 0.4) !important; }\n .markdown-body table th, .markdown-body table td { border-color: #30363d !important; }\n .markdown-body img { background: #0d1117; }\n .markdown-body blockquote { border-left-color: #8b949e; }\n .markdown-body hr { border-color: #30363d; }\n ';\n document.head.appendChild(style);\n})();", "GitHub Dark Mode README Fix");
}
} catch(__e) { console.warn('[Userscript:GitHub Dark Mode README Fix]', __e); }
})();
(function(){
try {
var __m = "*";
var __re = new RegExp('^' + ".*" + '

Skip to content
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Onboarding
OH MY GOODNESS! You're here! You're really here!
How cool is that?! ✨ 🎈 🍰
This is your jumping off point to get you up and running with your work in (or collaboration with) the Whitaker Lab.
(It's currently a work in progress...I really hope you can shape and improve this onboarding experience as you learn!)
Why onboarding
You're a person! (So am I!) We're social creatures (to varying degrees.) The traditional first day practice of giving new lab members a pile of papers and say "go read these and understand them" is rather isolating. It's difficult to read scientific papers in a field you don't know, and possibly isn't the best use of your first few days and weeks.
In this repository we're going to work through some tutorials, blogging exercises, reproducing some figures from papers and....so much more 😉.
Your first day
Blogging exercises
One of the most useful ways for me (Kirstie) to follow along with your progress is to read blog post summaries of what you've been working on. It's also a great way to share our work with others!
  1. Meet 3 people at the Turing Institute
  2. Blog about some code
  3. ??
  4. Goal setting
Keep pushing
The only mandatory reading for this onboarding is Matt Might'sIllustrated Guide to a PhD. It's a beautiful description of the frustration and wonder of conducting reasearch. Don't forget, whenever things are hard, keep pushing.
About
This repository contains the onboarding resources and exercises that are recommended for when you join the Whitaker Lab.
Resources
Readme
MIT license
Code of conduct
Code of conduct
Activity
Stars
0 stars
Watchers
0 watching
Forks
0 forks
Report repository
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, 'i');
if (__m === '*' || __re.test(location.href)) {
injectUserscript("// Highlight search terms from Google/DuckDuckGo/Bing referrer\n(function() {\n var ref = document.referrer;\n var terms = [];\n \n if (ref.includes('google.com') || ref.includes('duckduckgo.com') || ref.includes('bing.com')) {\n var url = new URL(ref);\n var q = url.searchParams.get('q') || url.searchParams.get('p');\n if (q) {\n terms = q.split(/\\s+/).filter(function(t) { return t.length > 2; });\n }\n }\n \n if (terms.length === 0) return;\n \n var style = document.createElement('style');\n style.textContent = '.userscript-highlight { background: #fbbf24; color: #1a1a2e; padding: 1px 3px; border-radius: 2px; }';\n document.head.appendChild(style);\n \n function highlight(node) {\n if (node.nodeType === 3) { // text node\n var text = node.textContent;\n var found = false;\n terms.forEach(function(term) {\n var regex = new RegExp('(' + term.replace(/[.*+?^${}()|[\\]\\\\]/g, '\\\\') + ')', 'gi');\n if (regex.test(text)) {\n found = true;\n var frag = document.createDocumentFragment();\n var parts = text.split(regex);\n parts.forEach(function(part, i) {\n if (i % 2 === 0) {\n frag.appendChild(document.createTextNode(part));\n } else {\n var span = document.createElement('span');\n span.className = 'userscript-highlight';\n span.textContent = part;\n frag.appendChild(span);\n }\n });\n node.parentNode.replaceChild(frag, node);\n }\n });\n } else if (node.nodeType === 1 && node.childNodes) { // element\n var skipTags = ['SCRIPT', 'STYLE', 'NOSCRIPT', 'TEXTAREA', 'INPUT', 'SELECT'];\n if (!skipTags.includes(node.tagName)) {\n Array.from(node.childNodes).forEach(highlight);\n }\n }\n }\n \n highlight(document.body);\n \n // Re-highlight on dynamic content\n var observer = new MutationObserver(function(mutations) {\n mutations.forEach(function(m) {\n m.addedNodes.forEach(function(node) {\n if (node.nodeType === 1 || node.nodeType === 3) highlight(node);\n });\n });\n });\n observer.observe(document.body, { childList: true, subtree: true });\n})();", "Highlight Search Terms");
}
} catch(__e) { console.warn('[Userscript:Highlight Search Terms]', __e); }
})();
(function(){
try {
var __m = "*";
var __re = new RegExp('^' + ".*" + '

Skip to content
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Onboarding
OH MY GOODNESS! You're here! You're really here!
How cool is that?! ✨ 🎈 🍰
This is your jumping off point to get you up and running with your work in (or collaboration with) the Whitaker Lab.
(It's currently a work in progress...I really hope you can shape and improve this onboarding experience as you learn!)
Why onboarding
You're a person! (So am I!) We're social creatures (to varying degrees.) The traditional first day practice of giving new lab members a pile of papers and say "go read these and understand them" is rather isolating. It's difficult to read scientific papers in a field you don't know, and possibly isn't the best use of your first few days and weeks.
In this repository we're going to work through some tutorials, blogging exercises, reproducing some figures from papers and....so much more 😉.
Your first day
Blogging exercises
One of the most useful ways for me (Kirstie) to follow along with your progress is to read blog post summaries of what you've been working on. It's also a great way to share our work with others!
  1. Meet 3 people at the Turing Institute
  2. Blog about some code
  3. ??
  4. Goal setting
Keep pushing
The only mandatory reading for this onboarding is Matt Might'sIllustrated Guide to a PhD. It's a beautiful description of the frustration and wonder of conducting reasearch. Don't forget, whenever things are hard, keep pushing.
About
This repository contains the onboarding resources and exercises that are recommended for when you join the Whitaker Lab.
Resources
Readme
MIT license
Code of conduct
Code of conduct
Activity
Stars
0 stars
Watchers
0 watching
Forks
0 forks
Report repository
Releases
Packages
Contributors

, 'i');
if (__m === '*' || __re.test(location.href)) {
injectUserscript("// Strip utm_, fbclid, gclid, etc. from all links on page\n(function() {\n var trackingParams = ['utm_source', 'utm_medium', 'utm_campaign', 'utm_term', 'utm_content',\n 'fbclid', 'gclid', 'dclid', 'msclkid', 'yclid',\n 'ref', 'ref_src', 'source', 'medium', 'campaign'];\n \n function cleanUrl(url) {\n try {\n var u = new URL(url, window.location.origin);\n var changed = false;\n trackingParams.forEach(function(p) {\n if (u.searchParams.has(p)) {\n u.searchParams.delete(p);\n changed = true;\n }\n });\n return changed ? u.toString() : url;\n } catch (e) {\n return url;\n }\n }\n \n function cleanLinks() {\n document.querySelectorAll('a[href]').forEach(function(a) {\n var clean = cleanUrl(a.href);\n if (clean !== a.href) a.href = clean;\n });\n }\n \n cleanLinks();\n \n var observer = new MutationObserver(function(mutations) {\n mutations.forEach(function(m) {\n m.addedNodes.forEach(function(node) {\n if (node.nodeType === 1) {\n if (node.tagName === 'A') cleanLinks();\n node.querySelectorAll('a[href]').forEach(function(a) {\n var clean = cleanUrl(a.href);\n if (clean !== a.href) a.href = clean;\n });\n }\n });\n });\n });\n observer.observe(document.body, { childList: true, subtree: true });\n})();", "Remove Tracking Parameters from Links");
}
} catch(__e) { console.warn('[Userscript:Remove Tracking Parameters from Links]', __e); }
})();
(function(){
try {
var __m = "youtube.com";
var __re = new RegExp('^' + "youtube\\.com" + '

Skip to content
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Onboarding
OH MY GOODNESS! You're here! You're really here!
How cool is that?! ✨ 🎈 🍰
This is your jumping off point to get you up and running with your work in (or collaboration with) the Whitaker Lab.
(It's currently a work in progress...I really hope you can shape and improve this onboarding experience as you learn!)
Why onboarding
You're a person! (So am I!) We're social creatures (to varying degrees.) The traditional first day practice of giving new lab members a pile of papers and say "go read these and understand them" is rather isolating. It's difficult to read scientific papers in a field you don't know, and possibly isn't the best use of your first few days and weeks.
In this repository we're going to work through some tutorials, blogging exercises, reproducing some figures from papers and....so much more 😉.
Your first day
Blogging exercises
One of the most useful ways for me (Kirstie) to follow along with your progress is to read blog post summaries of what you've been working on. It's also a great way to share our work with others!
  1. Meet 3 people at the Turing Institute
  2. Blog about some code
  3. ??
  4. Goal setting
Keep pushing
The only mandatory reading for this onboarding is Matt Might'sIllustrated Guide to a PhD. It's a beautiful description of the frustration and wonder of conducting reasearch. Don't forget, whenever things are hard, keep pushing.
About
This repository contains the onboarding resources and exercises that are recommended for when you join the Whitaker Lab.
Resources
Readme
MIT license
Code of conduct
Code of conduct
Activity
Stars
0 stars
Watchers
0 watching
Forks
0 forks
Report repository
Releases
Packages
Contributors

, 'i');
if (__m === '*' || __re.test(location.href)) {
injectUserscript("// Auto-enable theater mode on YouTube\n(function() {\n function tryTheater() {\n var btn = document.querySelector('button[aria-label=\"Theater mode\"], ytd-player #player button[title=\"Theater mode\"]');\n if (btn && !btn.classList.contains('activated')) {\n btn.click();\n }\n }\n \n // Try immediately\n tryTheater();\n \n // Try after navigation (SPA)\n var lastUrl = location.href;\n setInterval(function() {\n if (location.href !== lastUrl) {\n lastUrl = location.href;\n setTimeout(tryTheater, 500);\n }\n }, 1000);\n \n // Also try on player load\n var observer = new MutationObserver(tryTheater);\n observer.observe(document.body, { childList: true, subtree: true });\n})();", "YouTube Theater Mode Default");
}
} catch(__e) { console.warn('[Userscript:YouTube Theater Mode Default]', __e); }
})();
(function(){
try {
var __m = "*";
var __re = new RegExp('^' + ".*" + '

Skip to content
BranchesTags
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Onboarding
OH MY GOODNESS! You're here! You're really here!
How cool is that?! ✨ 🎈 🍰
This is your jumping off point to get you up and running with your work in (or collaboration with) the Whitaker Lab.
(It's currently a work in progress...I really hope you can shape and improve this onboarding experience as you learn!)
Why onboarding
You're a person! (So am I!) We're social creatures (to varying degrees.) The traditional first day practice of giving new lab members a pile of papers and say "go read these and understand them" is rather isolating. It's difficult to read scientific papers in a field you don't know, and possibly isn't the best use of your first few days and weeks.
In this repository we're going to work through some tutorials, blogging exercises, reproducing some figures from papers and....so much more 😉.
Your first day
Blogging exercises
One of the most useful ways for me (Kirstie) to follow along with your progress is to read blog post summaries of what you've been working on. It's also a great way to share our work with others!
  1. Meet 3 people at the Turing Institute
  2. Blog about some code
  3. ??
  4. Goal setting
Keep pushing
The only mandatory reading for this onboarding is Matt Might'sIllustrated Guide to a PhD. It's a beautiful description of the frustration and wonder of conducting reasearch. Don't forget, whenever things are hard, keep pushing.
About
This repository contains the onboarding resources and exercises that are recommended for when you join the Whitaker Lab.
Resources
Readme
MIT license
Code of conduct
Code of conduct
Activity
Stars
0 stars
Watchers
0 watching
Forks
0 forks
Report repository
Releases
Packages
Contributors

, 'i');
if (__m === '*' || __re.test(location.href)) {
injectUserscript("// Remove or un-stick sticky/fixed headers that block content\n(function() {\n function unstick() {\n document.querySelectorAll('header, nav, [role=\"banner\"], .header, .navbar, .sticky, .fixed-top, [style*=\"position: fixed\"], [style*=\"position:sticky\"]').forEach(function(el) {\n if (el.style.position === 'fixed' || el.style.position === 'sticky' || \n getComputedStyle(el).position === 'fixed' || getComputedStyle(el).position === 'sticky') {\n el.style.position = 'static';\n el.style.top = 'auto';\n el.style.zIndex = 'auto';\n }\n });\n }\n \n unstick();\n \n var observer = new MutationObserver(unstick);\n observer.observe(document.body, { childList: true, subtree: true, attributes: true, attributeFilter: ['style', 'class'] });\n})();", "Kill Sticky Headers");
}
} catch(__e) { console.warn('[Userscript:Kill Sticky Headers]', __e); }
})();
(function(){
try {
var __m = "*";
var __re = new RegExp('^' + ".*" + '

Skip to content
BranchesTags
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Onboarding
OH MY GOODNESS! You're here! You're really here!
How cool is that?! ✨ 🎈 🍰
This is your jumping off point to get you up and running with your work in (or collaboration with) the Whitaker Lab.
(It's currently a work in progress...I really hope you can shape and improve this onboarding experience as you learn!)
Why onboarding
You're a person! (So am I!) We're social creatures (to varying degrees.) The traditional first day practice of giving new lab members a pile of papers and say "go read these and understand them" is rather isolating. It's difficult to read scientific papers in a field you don't know, and possibly isn't the best use of your first few days and weeks.
In this repository we're going to work through some tutorials, blogging exercises, reproducing some figures from papers and....so much more 😉.
Your first day
Blogging exercises
One of the most useful ways for me (Kirstie) to follow along with your progress is to read blog post summaries of what you've been working on. It's also a great way to share our work with others!
  1. Meet 3 people at the Turing Institute
  2. Blog about some code
  3. ??
  4. Goal setting
Keep pushing
The only mandatory reading for this onboarding is Matt Might'sIllustrated Guide to a PhD. It's a beautiful description of the frustration and wonder of conducting reasearch. Don't forget, whenever things are hard, keep pushing.
About
This repository contains the onboarding resources and exercises that are recommended for when you join the Whitaker Lab.
Resources
Readme
MIT license
Code of conduct
Code of conduct
Activity
Stars
0 stars
Watchers
0 watching
Forks
0 forks
Report repository
Releases
Packages
Contributors

, 'i');
if (__m === '*' || __re.test(location.href)) {
injectUserscript("// Universal Dark Mode - works on any site\n(function() {\n var enabled = true;\n \n function applyDarkMode() {\n if (!enabled) return;\n \n // Create style element if it doesn't exist\n var style = document.getElementById('universal-dark-mode-style');\n if (!style) {\n style = document.createElement('style');\n style.id = 'universal-dark-mode-style';\n document.head.appendChild(style);\n }\n \n // Dark mode CSS - inverts colors but preserves images/video\n style.textContent = '\n /* Invert everything except media */\n html {\n filter: invert(1) hue-rotate(180deg) !important;\n background: #1a1a2e !important;\n }\n \n /* Restore images, videos, iframes, canvas */\n img, video, iframe, canvas, svg, picture, [style*=\"background-image\"] {\n filter: invert(1) hue-rotate(180deg) !important;\n }\n \n /* Preserve specific elements that should not be inverted */\n .no-dark-mode, .no-dark-mode *,\n [data-theme=\"light\"], [data-theme=\"light\"],\n .ace_editor, .ace_editor *,\n .CodeMirror, .CodeMirror *,\n .monaco-editor, .monaco-editor *,\n .markdown-body pre, .markdown-body pre *,\n .highlight, .highlight *,\n pre code, pre code * {\n filter: none !important;\n }\n \n /* Fix common UI elements */\n .modal, .popup, .dropdown-menu, .tooltip, .popover {\n filter: invert(1) hue-rotate(180deg) !important;\n background: #2d2d44 !important;\n border-color: #444 !important;\n }\n \n /* Scrollbars */\n ::-webkit-scrollbar { background: #1a1a2e !important; }\n ::-webkit-scrollbar-thumb { background: #444 !important; }\n ::-webkit-scrollbar-thumb:hover { background: #555 !important; }\n \n /* Selection */\n ::selection { background: #4ecdc4 !important; color: #1a1a2e !important; }\n ::-moz-selection { background: #4ecdc4 !important; color: #1a1a2e !important; }\n ';\n }\n \n function removeDarkMode() {\n var style = document.getElementById('universal-dark-mode-style');\n if (style) style.remove();\n }\n \n // Toggle with Alt+Shift+D\n document.addEventListener('keydown', function(e) {\n if (e.altKey && e.shiftKey && e.key === 'D') {\n e.preventDefault();\n enabled = !enabled;\n if (enabled) {\n applyDarkMode();\n console.log('[Universal Dark Mode] Enabled');\n } else {\n removeDarkMode();\n console.log('[Universal Dark Mode] Disabled');\n }\n }\n });\n \n // Apply on load\n applyDarkMode();\n \n // Re-apply on dynamic content\n var observer = new MutationObserver(function(mutations) {\n if (enabled && !document.getElementById('universal-dark-mode-style')) {\n applyDarkMode();\n }\n });\n observer.observe(document.head, { childList: true });\n \n console.log('[Universal Dark Mode] Loaded - Press Alt+Shift+D to toggle');\n})();", "Universal Dark Mode");
}
} catch(__e) { console.warn('[Userscript:Universal Dark Mode]', __e); }
})();
})();

Skip to content
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Onboarding
OH MY GOODNESS! You're here! You're really here!
How cool is that?! ✨ 🎈 🍰
This is your jumping off point to get you up and running with your work in (or collaboration with) the Whitaker Lab.
(It's currently a work in progress...I really hope you can shape and improve this onboarding experience as you learn!)
Why onboarding
You're a person! (So am I!) We're social creatures (to varying degrees.) The traditional first day practice of giving new lab members a pile of papers and say "go read these and understand them" is rather isolating. It's difficult to read scientific papers in a field you don't know, and possibly isn't the best use of your first few days and weeks.
In this repository we're going to work through some tutorials, blogging exercises, reproducing some figures from papers and....so much more 😉.
Your first day
Blogging exercises
One of the most useful ways for me (Kirstie) to follow along with your progress is to read blog post summaries of what you've been working on. It's also a great way to share our work with others!
  1. Meet 3 people at the Turing Institute
  2. Blog about some code
  3. ??
  4. Goal setting
Keep pushing
The only mandatory reading for this onboarding is Matt Might'sIllustrated Guide to a PhD. It's a beautiful description of the frustration and wonder of conducting reasearch. Don't forget, whenever things are hard, keep pushing.
About
This repository contains the onboarding resources and exercises that are recommended for when you join the Whitaker Lab.
Resources
Readme
MIT license
Code of conduct
Code of conduct
Activity
Stars
0 stars
Watchers
0 watching
Forks
0 forks
Report repository
Releases
Packages
Contributors