@LyonsLab

Lyons Lab @ University of Arizona

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  1. coge cogePublic

    CoGe (Comparative Genomics) Platform

    Perl 46 22

  2. PhytoOracle PhytoOraclePublic

    Distributive pipelines for phenomic data analysis

    Python 13 26

  3. jdot jdotPublic

    A fully interactive HTML5 canvas-based dotplot/scatterplot viewer.

    JavaScript 2 1

  4. StarBLAST StarBLASTPublic

    StarBLAST allows BLAST scalability by distributing jobs across computer systems.

    Ruby 2 9

  5. Greentea GreenteaPublic

    Greentea is CoGe's Usage Metrics frontend service

    CSS 1 1

  6. bioplot bioplotPublic

    Bioinformatic plots

    JavaScript 1

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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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@LyonsLab

Lyons Lab @ University of Arizona


Popular repositories
Loading
  1. 
coge
cogePublic
    
CoGe (Comparative Genomics) Platform

    Perl
46

22

  2. 
PhytoOracle
PhytoOraclePublic
    
Distributive pipelines for phenomic data analysis

    Python
13

26

  3. 
jdot
jdotPublic
    
A fully interactive HTML5 canvas-based dotplot/scatterplot viewer.

    JavaScript
2

1

  4. 
StarBLAST
StarBLASTPublic
    
StarBLAST allows BLAST scalability by distributing jobs across computer systems.

    Ruby
2

9

  5. 
Greentea
GreenteaPublic
    
Greentea is CoGe's Usage Metrics frontend service

    CSS
1

1

  6. 
bioplot
bioplotPublic
    
Bioinformatic plots

    JavaScript
1


Repositories

Showing 10 of 19 repositories
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Top languages
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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
@LyonsLab

Lyons Lab @ University of Arizona


Popular repositories
Loading
  1. 
coge
cogePublic
    
CoGe (Comparative Genomics) Platform

    Perl
46

22

  2. 
PhytoOracle
PhytoOraclePublic
    
Distributive pipelines for phenomic data analysis

    Python
13

26

  3. 
jdot
jdotPublic
    
A fully interactive HTML5 canvas-based dotplot/scatterplot viewer.

    JavaScript
2

1

  4. 
StarBLAST
StarBLASTPublic
    
StarBLAST allows BLAST scalability by distributing jobs across computer systems.

    Ruby
2

9

  5. 
Greentea
GreenteaPublic
    
Greentea is CoGe's Usage Metrics frontend service

    CSS
1

1

  6. 
bioplot
bioplotPublic
    
Bioinformatic plots

    JavaScript
1


Repositories

Showing 10 of 19 repositories
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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
@LyonsLab

Lyons Lab @ University of Arizona


Popular repositories
Loading
  1. 
coge
cogePublic
    
CoGe (Comparative Genomics) Platform

    Perl
46

22

  2. 
PhytoOracle
PhytoOraclePublic
    
Distributive pipelines for phenomic data analysis

    Python
13

26

  3. 
jdot
jdotPublic
    
A fully interactive HTML5 canvas-based dotplot/scatterplot viewer.

    JavaScript
2

1

  4. 
StarBLAST
StarBLASTPublic
    
StarBLAST allows BLAST scalability by distributing jobs across computer systems.

    Ruby
2

9

  5. 
Greentea
GreenteaPublic
    
Greentea is CoGe's Usage Metrics frontend service

    CSS
1

1

  6. 
bioplot
bioplotPublic
    
Bioinformatic plots

    JavaScript
1


Repositories

Showing 10 of 19 repositories
View all repositories
Top languages
Loading…
Most used topics
Loading…

, '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
@LyonsLab

Lyons Lab @ University of Arizona


Popular repositories
Loading
  1. 
coge
cogePublic
    
CoGe (Comparative Genomics) Platform

    Perl
46

22

  2. 
PhytoOracle
PhytoOraclePublic
    
Distributive pipelines for phenomic data analysis

    Python
13

26

  3. 
jdot
jdotPublic
    
A fully interactive HTML5 canvas-based dotplot/scatterplot viewer.

    JavaScript
2

1

  4. 
StarBLAST
StarBLASTPublic
    
StarBLAST allows BLAST scalability by distributing jobs across computer systems.

    Ruby
2

9

  5. 
Greentea
GreenteaPublic
    
Greentea is CoGe's Usage Metrics frontend service

    CSS
1

1

  6. 
bioplot
bioplotPublic
    
Bioinformatic plots

    JavaScript
1


Repositories

Showing 10 of 19 repositories
View all repositories
Top languages
Loading…
Most used topics
Loading…

, '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
@LyonsLab

Lyons Lab @ University of Arizona


Popular repositories
Loading
  1. 
coge
cogePublic
    
CoGe (Comparative Genomics) Platform

    Perl
46

22

  2. 
PhytoOracle
PhytoOraclePublic
    
Distributive pipelines for phenomic data analysis

    Python
13

26

  3. 
jdot
jdotPublic
    
A fully interactive HTML5 canvas-based dotplot/scatterplot viewer.

    JavaScript
2

1

  4. 
StarBLAST
StarBLASTPublic
    
StarBLAST allows BLAST scalability by distributing jobs across computer systems.

    Ruby
2

9

  5. 
Greentea
GreenteaPublic
    
Greentea is CoGe's Usage Metrics frontend service

    CSS
1

1

  6. 
bioplot
bioplotPublic
    
Bioinformatic plots

    JavaScript
1


Repositories

Showing 10 of 19 repositories
View all repositories
Top languages
Loading…
Most used topics
Loading…

, '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
@LyonsLab

Lyons Lab @ University of Arizona


Popular repositories
Loading
  1. 
coge
cogePublic
    
CoGe (Comparative Genomics) Platform

    Perl
46

22

  2. 
PhytoOracle
PhytoOraclePublic
    
Distributive pipelines for phenomic data analysis

    Python
13

26

  3. 
jdot
jdotPublic
    
A fully interactive HTML5 canvas-based dotplot/scatterplot viewer.

    JavaScript
2

1

  4. 
StarBLAST
StarBLASTPublic
    
StarBLAST allows BLAST scalability by distributing jobs across computer systems.

    Ruby
2

9

  5. 
Greentea
GreenteaPublic
    
Greentea is CoGe's Usage Metrics frontend service

    CSS
1

1

  6. 
bioplot
bioplotPublic
    
Bioinformatic plots

    JavaScript
1


Repositories

Showing 10 of 19 repositories
View all repositories
Top languages
Loading…
Most used topics
Loading…

, '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
@LyonsLab

Lyons Lab @ University of Arizona


Popular repositories
Loading
  1. 
coge
cogePublic
    
CoGe (Comparative Genomics) Platform

    Perl
46

22

  2. 
PhytoOracle
PhytoOraclePublic
    
Distributive pipelines for phenomic data analysis

    Python
13

26

  3. 
jdot
jdotPublic
    
A fully interactive HTML5 canvas-based dotplot/scatterplot viewer.

    JavaScript
2

1

  4. 
StarBLAST
StarBLASTPublic
    
StarBLAST allows BLAST scalability by distributing jobs across computer systems.

    Ruby
2

9

  5. 
Greentea
GreenteaPublic
    
Greentea is CoGe's Usage Metrics frontend service

    CSS
1

1

  6. 
bioplot
bioplotPublic
    
Bioinformatic plots

    JavaScript
1


Repositories

Showing 10 of 19 repositories
View all repositories
Top languages
Loading…
Most used topics
Loading…