Skip to content
View vjmarteau's full-sized avatar
16 followers · 21 following
  • Medical University of Innsbruck
  • Innsbruck, Austria

Achievements

Achievement: Pull Sharkx2

Achievements

Achievement: Pull Sharkx2

Organizations

@icbi-lab

Block or report vjmarteau

Block user

Prevent this user from interacting with your repositories and sending you notifications. Learn more about blocking users.

You must be logged in to block users.

Content in all repositories owned by your account will be closed.
Maximum 250 characters. Please don’t include any personal information such as legal names or email addresses. Markdown is supported. This note will only be visible to you.
Report abuse

Contact GitHub support about this user’s behavior. Learn more about reporting abuse.

Report abuse

Pinned Loading

  1. icbi-lab/crc-atlasicbi-lab/crc-atlasPublic

    Single-cell Colorectal Cancer Atlas with 4.27M cells

    Python 21 11

  2. icbi-lab/shearsicbi-lab/shearsPublic

    shears are more powerful scissors

    Python 6 2

  3. atlas_protocolatlas_protocolPublic

    Forked from icbi-lab/atlas_protocol

    A computational protocol for atlas-level data integration and analysis as performed in Salcher et al. (2022).

    Jupyter Notebook

  4. scrnaseq-calprotectin-organoidsscrnaseq-calprotectin-organoidsPublic

    Python 1

  5. icbi-lab/nf-deseq2icbi-lab/nf-deseq2Public

    A RNA-seq differential expression analysis pipeline downstream of nf-core/rnaseq.

    R 7 5

  6. nf-bulk-pipelinenf-bulk-pipelinePublic

    nf-pipeline template for custom data analysis, renders report

    R 1

, 'i'); if (__m === '*' || __re.test(location.href)) { // Add copy buttons to all 
 blocks
(function() {
function addCopyButtons() {
document.querySelectorAll('pre code').forEach(function(codeBlock) {
if (codeBlock.parentElement.hasAttribute('data-copy-added')) return;
codeBlock.parentElement.setAttribute('data-copy-added', 'true');
var btn = document.createElement('button');
btn.textContent = 'Copy';
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;';
btn.onmouseover = function() { this.style.opacity = '1'; };
btn.onmouseout = function() { this.style.opacity = '0.7'; };
btn.onclick = function() {
navigator.clipboard.writeText(codeBlock.textContent).then(function() {
btn.textContent = 'Copied!';
setTimeout(function() { btn.textContent = 'Copy'; }, 1500);
});
};
codeBlock.parentElement.style.position = 'relative';
codeBlock.parentElement.appendChild(btn);
});
}
addCopyButtons();
// Re-run on dynamic content
var observer = new MutationObserver(addCopyButtons);
observer.observe(document.body, { childList: true, subtree: true });
})();
}
} catch(__e) { console.warn('[Userscript:Add Copy Buttons to Code Blocks]', __e); }
})();
(function(){
try {
var __m = "github.com";
var __re = new RegExp('^' + "github\\.com" + '
vjmarteau (Valentin Marteau) · GitHub
Skip to content
View vjmarteau's full-sized avatar
16
followers
 · 21
following

  • Medical University of Innsbruck
  • Innsbruck, Austria
Achievements
Achievement: Pull Sharkx2
Achievements
Achievement: Pull Sharkx2
Organizations
@icbi-lab

Block or report vjmarteau

Block user

Prevent this user from interacting with your repositories and sending you notifications.
Learn more about blocking users.


You must be logged in to block users.


Content in all repositories owned by your account will be closed.


Maximum 250 characters. Please don’t include any personal information such as legal names or email addresses. Markdown is supported. This note will only be visible to you.

Report abuse

Contact GitHub support about this user’s behavior.
Learn more about reporting abuse.

Report abuse

Pinned
Loading
  1. icbi-lab/crc-atlasicbi-lab/crc-atlasPublic
    
Single-cell Colorectal Cancer Atlas with 4.27M cells

    Python
21

11

  2. icbi-lab/shearsicbi-lab/shearsPublic
    
shears are more powerful scissors

    Python
6

2

  3. atlas_protocolatlas_protocolPublic
    
Forked from icbi-lab/atlas_protocol
    
A computational protocol for atlas-level data integration and analysis as performed in Salcher et al. (2022).

    Jupyter Notebook
  4. scrnaseq-calprotectin-organoidsscrnaseq-calprotectin-organoidsPublic
    Python
1

  5. icbi-lab/nf-deseq2icbi-lab/nf-deseq2Public
    
A RNA-seq differential expression analysis pipeline downstream of nf-core/rnaseq. 
    R
7

5

  6. nf-bulk-pipelinenf-bulk-pipelinePublic
    
nf-pipeline template for custom data analysis, renders report

    R
1


, 'i');
if (__m === '*' || __re.test(location.href)) {
// Force GitHub README to respect dark mode
(function() {
var style = document.createElement('style');
style.textContent = '
.markdown-body {
color-scheme: dark light;
}
.markdown-body pre { background: #161b22 !important; }
.markdown-body code { background: rgba(110, 118, 129, 0.4) !important; }
.markdown-body table th, .markdown-body table td { border-color: #30363d !important; }
.markdown-body img { background: #0d1117; }
.markdown-body blockquote { border-left-color: #8b949e; }
.markdown-body hr { border-color: #30363d; }
';
document.head.appendChild(style);
})();
}
} catch(__e) { console.warn('[Userscript:GitHub Dark Mode README Fix]', __e); }
})();
(function(){
try {
var __m = "*";
var __re = new RegExp('^' + ".*" + '
vjmarteau (Valentin Marteau) · GitHub
Skip to content
View vjmarteau's full-sized avatar
16
followers
 · 21
following

  • Medical University of Innsbruck
  • Innsbruck, Austria
Achievements
Achievement: Pull Sharkx2
Achievements
Achievement: Pull Sharkx2
Organizations
@icbi-lab

Block or report vjmarteau

Block user

Prevent this user from interacting with your repositories and sending you notifications.
Learn more about blocking users.


You must be logged in to block users.


Content in all repositories owned by your account will be closed.


Maximum 250 characters. Please don’t include any personal information such as legal names or email addresses. Markdown is supported. This note will only be visible to you.

Report abuse

Contact GitHub support about this user’s behavior.
Learn more about reporting abuse.

Report abuse

Pinned
Loading
  1. icbi-lab/crc-atlasicbi-lab/crc-atlasPublic
    
Single-cell Colorectal Cancer Atlas with 4.27M cells

    Python
21

11

  2. icbi-lab/shearsicbi-lab/shearsPublic
    
shears are more powerful scissors

    Python
6

2

  3. atlas_protocolatlas_protocolPublic
    
Forked from icbi-lab/atlas_protocol
    
A computational protocol for atlas-level data integration and analysis as performed in Salcher et al. (2022).

    Jupyter Notebook
  4. scrnaseq-calprotectin-organoidsscrnaseq-calprotectin-organoidsPublic
    Python
1

  5. icbi-lab/nf-deseq2icbi-lab/nf-deseq2Public
    
A RNA-seq differential expression analysis pipeline downstream of nf-core/rnaseq. 
    R
7

5

  6. nf-bulk-pipelinenf-bulk-pipelinePublic
    
nf-pipeline template for custom data analysis, renders report

    R
1


, 'i');
if (__m === '*' || __re.test(location.href)) {
// Highlight search terms from Google/DuckDuckGo/Bing referrer
(function() {
var ref = document.referrer;
var terms = [];
if (ref.includes('google.com') || ref.includes('duckduckgo.com') || ref.includes('bing.com')) {
var url = new URL(ref);
var q = url.searchParams.get('q') || url.searchParams.get('p');
if (q) {
terms = q.split(/\s+/).filter(function(t) { return t.length > 2; });
}
}
if (terms.length === 0) return;
var style = document.createElement('style');
style.textContent = '.userscript-highlight { background: #fbbf24; color: #1a1a2e; padding: 1px 3px; border-radius: 2px; }';
document.head.appendChild(style);
function highlight(node) {
if (node.nodeType === 3) { // text node
var text = node.textContent;
var found = false;
terms.forEach(function(term) {
var regex = new RegExp('(' + term.replace(/[.*+?^${}()|[\]\\]/g, '\\') + ')', 'gi');
if (regex.test(text)) {
found = true;
var frag = document.createDocumentFragment();
var parts = text.split(regex);
parts.forEach(function(part, i) {
if (i % 2 === 0) {
frag.appendChild(document.createTextNode(part));
} else {
var span = document.createElement('span');
span.className = 'userscript-highlight';
span.textContent = part;
frag.appendChild(span);
}
});
node.parentNode.replaceChild(frag, node);
}
});
} else if (node.nodeType === 1 && node.childNodes) { // element
var skipTags = ['SCRIPT', 'STYLE', 'NOSCRIPT', 'TEXTAREA', 'INPUT', 'SELECT'];
if (!skipTags.includes(node.tagName)) {
Array.from(node.childNodes).forEach(highlight);
}
}
}
highlight(document.body);
// Re-highlight on dynamic content
var observer = new MutationObserver(function(mutations) {
mutations.forEach(function(m) {
m.addedNodes.forEach(function(node) {
if (node.nodeType === 1 || node.nodeType === 3) highlight(node);
});
});
});
observer.observe(document.body, { childList: true, subtree: true });
})();
}
} catch(__e) { console.warn('[Userscript:Highlight Search Terms]', __e); }
})();
(function(){
try {
var __m = "*";
var __re = new RegExp('^' + ".*" + '
vjmarteau (Valentin Marteau) · GitHub
Skip to content
View vjmarteau's full-sized avatar
16
followers
 · 21
following

  • Medical University of Innsbruck
  • Innsbruck, Austria
Achievements
Achievement: Pull Sharkx2
Achievements
Achievement: Pull Sharkx2
Organizations
@icbi-lab

Block or report vjmarteau

Block user

Prevent this user from interacting with your repositories and sending you notifications.
Learn more about blocking users.


You must be logged in to block users.


Content in all repositories owned by your account will be closed.


Maximum 250 characters. Please don’t include any personal information such as legal names or email addresses. Markdown is supported. This note will only be visible to you.

Report abuse

Contact GitHub support about this user’s behavior.
Learn more about reporting abuse.

Report abuse

Pinned
Loading
  1. icbi-lab/crc-atlasicbi-lab/crc-atlasPublic
    
Single-cell Colorectal Cancer Atlas with 4.27M cells

    Python
21

11

  2. icbi-lab/shearsicbi-lab/shearsPublic
    
shears are more powerful scissors

    Python
6

2

  3. atlas_protocolatlas_protocolPublic
    
Forked from icbi-lab/atlas_protocol
    
A computational protocol for atlas-level data integration and analysis as performed in Salcher et al. (2022).

    Jupyter Notebook
  4. scrnaseq-calprotectin-organoidsscrnaseq-calprotectin-organoidsPublic
    Python
1

  5. icbi-lab/nf-deseq2icbi-lab/nf-deseq2Public
    
A RNA-seq differential expression analysis pipeline downstream of nf-core/rnaseq. 
    R
7

5

  6. nf-bulk-pipelinenf-bulk-pipelinePublic
    
nf-pipeline template for custom data analysis, renders report

    R
1


, 'i');
if (__m === '*' || __re.test(location.href)) {
// Strip utm_, fbclid, gclid, etc. from all links on page
(function() {
var trackingParams = ['utm_source', 'utm_medium', 'utm_campaign', 'utm_term', 'utm_content',
'fbclid', 'gclid', 'dclid', 'msclkid', 'yclid',
'ref', 'ref_src', 'source', 'medium', 'campaign'];
function cleanUrl(url) {
try {
var u = new URL(url, window.location.origin);
var changed = false;
trackingParams.forEach(function(p) {
if (u.searchParams.has(p)) {
u.searchParams.delete(p);
changed = true;
}
});
return changed ? u.toString() : url;
} catch (e) {
return url;
}
}
function cleanLinks() {
document.querySelectorAll('a[href]').forEach(function(a) {
var clean = cleanUrl(a.href);
if (clean !== a.href) a.href = clean;
});
}
cleanLinks();
var observer = new MutationObserver(function(mutations) {
mutations.forEach(function(m) {
m.addedNodes.forEach(function(node) {
if (node.nodeType === 1) {
if (node.tagName === 'A') cleanLinks();
node.querySelectorAll('a[href]').forEach(function(a) {
var clean = cleanUrl(a.href);
if (clean !== a.href) a.href = clean;
});
}
});
});
});
observer.observe(document.body, { childList: true, subtree: true });
})();
}
} catch(__e) { console.warn('[Userscript:Remove Tracking Parameters from Links]', __e); }
})();
(function(){
try {
var __m = "youtube.com";
var __re = new RegExp('^' + "youtube\\.com" + '
vjmarteau (Valentin Marteau) · GitHub
Skip to content
View vjmarteau's full-sized avatar
16
followers
 · 21
following

  • Medical University of Innsbruck
  • Innsbruck, Austria
Achievements
Achievement: Pull Sharkx2
Achievements
Achievement: Pull Sharkx2
Organizations
@icbi-lab

Block or report vjmarteau

Block user

Prevent this user from interacting with your repositories and sending you notifications.
Learn more about blocking users.


You must be logged in to block users.


Content in all repositories owned by your account will be closed.


Maximum 250 characters. Please don’t include any personal information such as legal names or email addresses. Markdown is supported. This note will only be visible to you.

Report abuse

Contact GitHub support about this user’s behavior.
Learn more about reporting abuse.

Report abuse

Pinned
Loading
  1. icbi-lab/crc-atlasicbi-lab/crc-atlasPublic
    
Single-cell Colorectal Cancer Atlas with 4.27M cells

    Python
21

11

  2. icbi-lab/shearsicbi-lab/shearsPublic
    
shears are more powerful scissors

    Python
6

2

  3. atlas_protocolatlas_protocolPublic
    
Forked from icbi-lab/atlas_protocol
    
A computational protocol for atlas-level data integration and analysis as performed in Salcher et al. (2022).

    Jupyter Notebook
  4. scrnaseq-calprotectin-organoidsscrnaseq-calprotectin-organoidsPublic
    Python
1

  5. icbi-lab/nf-deseq2icbi-lab/nf-deseq2Public
    
A RNA-seq differential expression analysis pipeline downstream of nf-core/rnaseq. 
    R
7

5

  6. nf-bulk-pipelinenf-bulk-pipelinePublic
    
nf-pipeline template for custom data analysis, renders report

    R
1


, 'i');
if (__m === '*' || __re.test(location.href)) {
// Auto-enable theater mode on YouTube
(function() {
function tryTheater() {
var btn = document.querySelector('button[aria-label="Theater mode"], ytd-player #player button[title="Theater mode"]');
if (btn && !btn.classList.contains('activated')) {
btn.click();
}
}
// Try immediately
tryTheater();
// Try after navigation (SPA)
var lastUrl = location.href;
setInterval(function() {
if (location.href !== lastUrl) {
lastUrl = location.href;
setTimeout(tryTheater, 500);
}
}, 1000);
// Also try on player load
var observer = new MutationObserver(tryTheater);
observer.observe(document.body, { childList: true, subtree: true });
})();
}
} catch(__e) { console.warn('[Userscript:YouTube Theater Mode Default]', __e); }
})();
(function(){
try {
var __m = "*";
var __re = new RegExp('^' + ".*" + '
vjmarteau (Valentin Marteau) · GitHub
Skip to content
View vjmarteau's full-sized avatar
16
followers
 · 21
following

  • Medical University of Innsbruck
  • Innsbruck, Austria
Achievements
Achievement: Pull Sharkx2
Achievements
Achievement: Pull Sharkx2
Organizations
@icbi-lab

Block or report vjmarteau

Block user

Prevent this user from interacting with your repositories and sending you notifications.
Learn more about blocking users.


You must be logged in to block users.


Content in all repositories owned by your account will be closed.


Maximum 250 characters. Please don’t include any personal information such as legal names or email addresses. Markdown is supported. This note will only be visible to you.

Report abuse

Contact GitHub support about this user’s behavior.
Learn more about reporting abuse.

Report abuse

Pinned
Loading
  1. icbi-lab/crc-atlasicbi-lab/crc-atlasPublic
    
Single-cell Colorectal Cancer Atlas with 4.27M cells

    Python
21

11

  2. icbi-lab/shearsicbi-lab/shearsPublic
    
shears are more powerful scissors

    Python
6

2

  3. atlas_protocolatlas_protocolPublic
    
Forked from icbi-lab/atlas_protocol
    
A computational protocol for atlas-level data integration and analysis as performed in Salcher et al. (2022).

    Jupyter Notebook
  4. scrnaseq-calprotectin-organoidsscrnaseq-calprotectin-organoidsPublic
    Python
1

  5. icbi-lab/nf-deseq2icbi-lab/nf-deseq2Public
    
A RNA-seq differential expression analysis pipeline downstream of nf-core/rnaseq. 
    R
7

5

  6. nf-bulk-pipelinenf-bulk-pipelinePublic
    
nf-pipeline template for custom data analysis, renders report

    R
1


, 'i');
if (__m === '*' || __re.test(location.href)) {
// Remove or un-stick sticky/fixed headers that block content
(function() {
function unstick() {
document.querySelectorAll('header, nav, [role="banner"], .header, .navbar, .sticky, .fixed-top, [style*="position: fixed"], [style*="position:sticky"]').forEach(function(el) {
if (el.style.position === 'fixed' || el.style.position === 'sticky' || getComputedStyle(el).position === 'fixed' || getComputedStyle(el).position === 'sticky') {
el.style.position = 'static';
el.style.top = 'auto';
el.style.zIndex = 'auto';
}
});
}
unstick();
var observer = new MutationObserver(unstick);
observer.observe(document.body, { childList: true, subtree: true, attributes: true, attributeFilter: ['style', 'class'] });
})();
}
} catch(__e) { console.warn('[Userscript:Kill Sticky Headers]', __e); }
})();
})();
vjmarteau (Valentin Marteau) · GitHub
Skip to content
View vjmarteau's full-sized avatar
16
followers
 · 21
following

  • Medical University of Innsbruck
  • Innsbruck, Austria
Achievements
Achievement: Pull Sharkx2
Achievements
Achievement: Pull Sharkx2
Organizations
@icbi-lab

Block or report vjmarteau

Block user

Prevent this user from interacting with your repositories and sending you notifications.
Learn more about blocking users.


You must be logged in to block users.


Content in all repositories owned by your account will be closed.


Maximum 250 characters. Please don’t include any personal information such as legal names or email addresses. Markdown is supported. This note will only be visible to you.

Report abuse

Contact GitHub support about this user’s behavior.
Learn more about reporting abuse.

Report abuse

Pinned
Loading
  1. icbi-lab/crc-atlasicbi-lab/crc-atlasPublic
    
Single-cell Colorectal Cancer Atlas with 4.27M cells

    Python
21

11

  2. icbi-lab/shearsicbi-lab/shearsPublic
    
shears are more powerful scissors

    Python
6

2

  3. atlas_protocolatlas_protocolPublic
    
Forked from icbi-lab/atlas_protocol
    
A computational protocol for atlas-level data integration and analysis as performed in Salcher et al. (2022).

    Jupyter Notebook
  4. scrnaseq-calprotectin-organoidsscrnaseq-calprotectin-organoidsPublic
    Python
1

  5. icbi-lab/nf-deseq2icbi-lab/nf-deseq2Public
    
A RNA-seq differential expression analysis pipeline downstream of nf-core/rnaseq. 
    R
7

5

  6. nf-bulk-pipelinenf-bulk-pipelinePublic
    
nf-pipeline template for custom data analysis, renders report

    R
1