@SchapiroLabor

Schapiro Lab

Popular repositories Loading

  1. histoCAT histoCATPublic

    Histology Topography Cytometry Analysis Toolbox

    MATLAB 69 24

  2. micronuclAI micronuclAIPublic

    Automated identification of micronuclei for chromosomal instability (CIN) quantification.

    Jupyter Notebook 12 3

  3. Background_subtraction Background_subtractionPublic

    Background subtraction for COMET platform

    Python 12 6

  4. macsima2mc macsima2mcPublic

    utitilies for macsima image sets

    Python 10 5

  5. macsima_pipeline macsima_pipelinePublic

    Shell 8

  6. spCellEval spCellEvalPublic

    Repository for spCellEval (Benchmarking Cell Phenotyping Methods in Spatial Proteomics)

    Jupyter Notebook 7 3

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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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@SchapiroLabor

Schapiro Lab


Popular repositories
Loading
  1. 
histoCAT
histoCATPublic
    
Histology Topography Cytometry Analysis Toolbox

    MATLAB
69

24

  2. 
micronuclAI
micronuclAIPublic
    
Automated identification of micronuclei for chromosomal instability (CIN) quantification.

    Jupyter Notebook
12

3

  3. 
Background_subtraction
Background_subtractionPublic
    
Background subtraction for COMET platform

    Python
12

6

  4. 
macsima2mc
macsima2mcPublic
    
utitilies for macsima image sets

    Python
10

5

  5. 
macsima_pipeline
macsima_pipelinePublic
    Shell
8

  6. 
spCellEval
spCellEvalPublic
    
Repository for spCellEval (Benchmarking Cell Phenotyping Methods in Spatial Proteomics)

    Jupyter Notebook
7

3


Repositories

Showing 10 of 67 repositories
View all repositories
People

This organization has no public members. You must be a member to see who’s a part of this organization.

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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
@SchapiroLabor

Schapiro Lab


Popular repositories
Loading
  1. 
histoCAT
histoCATPublic
    
Histology Topography Cytometry Analysis Toolbox

    MATLAB
69

24

  2. 
micronuclAI
micronuclAIPublic
    
Automated identification of micronuclei for chromosomal instability (CIN) quantification.

    Jupyter Notebook
12

3

  3. 
Background_subtraction
Background_subtractionPublic
    
Background subtraction for COMET platform

    Python
12

6

  4. 
macsima2mc
macsima2mcPublic
    
utitilies for macsima image sets

    Python
10

5

  5. 
macsima_pipeline
macsima_pipelinePublic
    Shell
8

  6. 
spCellEval
spCellEvalPublic
    
Repository for spCellEval (Benchmarking Cell Phenotyping Methods in Spatial Proteomics)

    Jupyter Notebook
7

3


Repositories

Showing 10 of 67 repositories
View all repositories
People

This organization has no public members. You must be a member to see who’s a part of this organization.

Top languages
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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
@SchapiroLabor

Schapiro Lab


Popular repositories
Loading
  1. 
histoCAT
histoCATPublic
    
Histology Topography Cytometry Analysis Toolbox

    MATLAB
69

24

  2. 
micronuclAI
micronuclAIPublic
    
Automated identification of micronuclei for chromosomal instability (CIN) quantification.

    Jupyter Notebook
12

3

  3. 
Background_subtraction
Background_subtractionPublic
    
Background subtraction for COMET platform

    Python
12

6

  4. 
macsima2mc
macsima2mcPublic
    
utitilies for macsima image sets

    Python
10

5

  5. 
macsima_pipeline
macsima_pipelinePublic
    Shell
8

  6. 
spCellEval
spCellEvalPublic
    
Repository for spCellEval (Benchmarking Cell Phenotyping Methods in Spatial Proteomics)

    Jupyter Notebook
7

3


Repositories

Showing 10 of 67 repositories
View all repositories
People

This organization has no public members. You must be a member to see who’s a part of this organization.

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
@SchapiroLabor

Schapiro Lab


Popular repositories
Loading
  1. 
histoCAT
histoCATPublic
    
Histology Topography Cytometry Analysis Toolbox

    MATLAB
69

24

  2. 
micronuclAI
micronuclAIPublic
    
Automated identification of micronuclei for chromosomal instability (CIN) quantification.

    Jupyter Notebook
12

3

  3. 
Background_subtraction
Background_subtractionPublic
    
Background subtraction for COMET platform

    Python
12

6

  4. 
macsima2mc
macsima2mcPublic
    
utitilies for macsima image sets

    Python
10

5

  5. 
macsima_pipeline
macsima_pipelinePublic
    Shell
8

  6. 
spCellEval
spCellEvalPublic
    
Repository for spCellEval (Benchmarking Cell Phenotyping Methods in Spatial Proteomics)

    Jupyter Notebook
7

3


Repositories

Showing 10 of 67 repositories
View all repositories
People

This organization has no public members. You must be a member to see who’s a part of this organization.

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
@SchapiroLabor

Schapiro Lab


Popular repositories
Loading
  1. 
histoCAT
histoCATPublic
    
Histology Topography Cytometry Analysis Toolbox

    MATLAB
69

24

  2. 
micronuclAI
micronuclAIPublic
    
Automated identification of micronuclei for chromosomal instability (CIN) quantification.

    Jupyter Notebook
12

3

  3. 
Background_subtraction
Background_subtractionPublic
    
Background subtraction for COMET platform

    Python
12

6

  4. 
macsima2mc
macsima2mcPublic
    
utitilies for macsima image sets

    Python
10

5

  5. 
macsima_pipeline
macsima_pipelinePublic
    Shell
8

  6. 
spCellEval
spCellEvalPublic
    
Repository for spCellEval (Benchmarking Cell Phenotyping Methods in Spatial Proteomics)

    Jupyter Notebook
7

3


Repositories

Showing 10 of 67 repositories
View all repositories
People

This organization has no public members. You must be a member to see who’s a part of this organization.

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
@SchapiroLabor

Schapiro Lab


Popular repositories
Loading
  1. 
histoCAT
histoCATPublic
    
Histology Topography Cytometry Analysis Toolbox

    MATLAB
69

24

  2. 
micronuclAI
micronuclAIPublic
    
Automated identification of micronuclei for chromosomal instability (CIN) quantification.

    Jupyter Notebook
12

3

  3. 
Background_subtraction
Background_subtractionPublic
    
Background subtraction for COMET platform

    Python
12

6

  4. 
macsima2mc
macsima2mcPublic
    
utitilies for macsima image sets

    Python
10

5

  5. 
macsima_pipeline
macsima_pipelinePublic
    Shell
8

  6. 
spCellEval
spCellEvalPublic
    
Repository for spCellEval (Benchmarking Cell Phenotyping Methods in Spatial Proteomics)

    Jupyter Notebook
7

3


Repositories

Showing 10 of 67 repositories
View all repositories
People

This organization has no public members. You must be a member to see who’s a part of this organization.

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
@SchapiroLabor

Schapiro Lab


Popular repositories
Loading
  1. 
histoCAT
histoCATPublic
    
Histology Topography Cytometry Analysis Toolbox

    MATLAB
69

24

  2. 
micronuclAI
micronuclAIPublic
    
Automated identification of micronuclei for chromosomal instability (CIN) quantification.

    Jupyter Notebook
12

3

  3. 
Background_subtraction
Background_subtractionPublic
    
Background subtraction for COMET platform

    Python
12

6

  4. 
macsima2mc
macsima2mcPublic
    
utitilies for macsima image sets

    Python
10

5

  5. 
macsima_pipeline
macsima_pipelinePublic
    Shell
8

  6. 
spCellEval
spCellEvalPublic
    
Repository for spCellEval (Benchmarking Cell Phenotyping Methods in Spatial Proteomics)

    Jupyter Notebook
7

3


Repositories

Showing 10 of 67 repositories
View all repositories
People

This organization has no public members. You must be a member to see who’s a part of this organization.

Top languages
Loading…
Most used topics
Loading…