BranchesTags

Repository files navigation

 CMAP README
CMap is a web-based application for graphically comparing genomic
maps. It was originally written for the Gramene project
(http://www.gramene.org/) under the supervision of Drs. Lincoln Stein
and Doreen Ware at Cold Spring Harbor Laboratories for comparing crop
grasses (rice, wheat, oat, barley, sorghum, etc.). CMap was then
altered to be able to handle more types of data than just plants and
was subsequently incorporated into the Generic Model Organism Database
toolkit (http://www.gmod.org/).
The application is written entirely in Perl. The application also
relies upon a relational database management system (RDBMS), such as
Oracle, MySQL, PostgreSQL or Sybase for gathering the data, and uses
Paul Boutell's libgd c library and Lincoln Stein's GD Perl module to
draw the maps. CMap can also create SVG.
To verify the integrity of the tarball, run "cpansign -v" (if you have
installed GnuPG and Module::Signature).
To install, follow the directions in the file called "INSTALL.pod."
You will probably want to use the "perldoc" application to view this
file (e.g. "perldoc INSTALL.pod"). After installation, this file will
exist in the "HTDOCS" directory you indicate as "INSTALL.html."
If you want to understand the code further, especially to customize or
extend it, read "docs/CODE_OVERVIEW.pod."
To understand how to load and curate data as well as how to generally
administrate CMap, please read "docs/ADMINISTRATION.pod."
If you have questions, write the CMap development list at
"gmod-cmap@lists.sourceforge.net" or the authors at "faga@cshl.edu" or
"kclark@cshl.edu".
---------------------------------------------------------------------
Patch Contributors
David Schibeci (dschibeci@ccg.murdoch.edu.au)
Centre for Comparative Genomics, Murdoch University
Molecular Plant Breeding Cooperative Research Centre

About

A browser-based tool for the visual comparison of various maps (sequence, genetic, etc.) from any number of species.

Resources

Readme
License
Activity
Custom properties

Stars

5 stars

Watchers

6 watching

Forks

2 forks
Report repository

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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" + '

Skip to content
BranchesTags
Repository files navigation
 CMAP README
CMap is a web-based application for graphically comparing genomic
maps. It was originally written for the Gramene project
(http://www.gramene.org/) under the supervision of Drs. Lincoln Stein
and Doreen Ware at Cold Spring Harbor Laboratories for comparing crop
grasses (rice, wheat, oat, barley, sorghum, etc.). CMap was then
altered to be able to handle more types of data than just plants and
was subsequently incorporated into the Generic Model Organism Database
toolkit (http://www.gmod.org/).
The application is written entirely in Perl. The application also
relies upon a relational database management system (RDBMS), such as
Oracle, MySQL, PostgreSQL or Sybase for gathering the data, and uses
Paul Boutell's libgd c library and Lincoln Stein's GD Perl module to
draw the maps. CMap can also create SVG.
To verify the integrity of the tarball, run "cpansign -v" (if you have
installed GnuPG and Module::Signature).
To install, follow the directions in the file called "INSTALL.pod."
You will probably want to use the "perldoc" application to view this
file (e.g. "perldoc INSTALL.pod"). After installation, this file will
exist in the "HTDOCS" directory you indicate as "INSTALL.html."
If you want to understand the code further, especially to customize or
extend it, read "docs/CODE_OVERVIEW.pod."
To understand how to load and curate data as well as how to generally
administrate CMap, please read "docs/ADMINISTRATION.pod."
If you have questions, write the CMap development list at
"gmod-cmap@lists.sourceforge.net" or the authors at "faga@cshl.edu" or
"kclark@cshl.edu".
---------------------------------------------------------------------
Patch Contributors
David Schibeci (dschibeci@ccg.murdoch.edu.au)
Centre for Comparative Genomics, Murdoch University
Molecular Plant Breeding Cooperative Research Centre

About
A browser-based tool for the visual comparison of various maps (sequence, genetic, etc.) from any number of species. 
Resources
Readme
License
Activity
Custom properties
Stars
5 stars
Watchers
6 watching
Forks
2 forks
Report repository
Releases
Packages
Contributors
Languages

, '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
BranchesTags
Repository files navigation
 CMAP README
CMap is a web-based application for graphically comparing genomic
maps. It was originally written for the Gramene project
(http://www.gramene.org/) under the supervision of Drs. Lincoln Stein
and Doreen Ware at Cold Spring Harbor Laboratories for comparing crop
grasses (rice, wheat, oat, barley, sorghum, etc.). CMap was then
altered to be able to handle more types of data than just plants and
was subsequently incorporated into the Generic Model Organism Database
toolkit (http://www.gmod.org/).
The application is written entirely in Perl. The application also
relies upon a relational database management system (RDBMS), such as
Oracle, MySQL, PostgreSQL or Sybase for gathering the data, and uses
Paul Boutell's libgd c library and Lincoln Stein's GD Perl module to
draw the maps. CMap can also create SVG.
To verify the integrity of the tarball, run "cpansign -v" (if you have
installed GnuPG and Module::Signature).
To install, follow the directions in the file called "INSTALL.pod."
You will probably want to use the "perldoc" application to view this
file (e.g. "perldoc INSTALL.pod"). After installation, this file will
exist in the "HTDOCS" directory you indicate as "INSTALL.html."
If you want to understand the code further, especially to customize or
extend it, read "docs/CODE_OVERVIEW.pod."
To understand how to load and curate data as well as how to generally
administrate CMap, please read "docs/ADMINISTRATION.pod."
If you have questions, write the CMap development list at
"gmod-cmap@lists.sourceforge.net" or the authors at "faga@cshl.edu" or
"kclark@cshl.edu".
---------------------------------------------------------------------
Patch Contributors
David Schibeci (dschibeci@ccg.murdoch.edu.au)
Centre for Comparative Genomics, Murdoch University
Molecular Plant Breeding Cooperative Research Centre

About
A browser-based tool for the visual comparison of various maps (sequence, genetic, etc.) from any number of species. 
Resources
Readme
License
Activity
Custom properties
Stars
5 stars
Watchers
6 watching
Forks
2 forks
Report repository
Releases
Packages
Contributors
Languages

, '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
BranchesTags
Repository files navigation
 CMAP README
CMap is a web-based application for graphically comparing genomic
maps. It was originally written for the Gramene project
(http://www.gramene.org/) under the supervision of Drs. Lincoln Stein
and Doreen Ware at Cold Spring Harbor Laboratories for comparing crop
grasses (rice, wheat, oat, barley, sorghum, etc.). CMap was then
altered to be able to handle more types of data than just plants and
was subsequently incorporated into the Generic Model Organism Database
toolkit (http://www.gmod.org/).
The application is written entirely in Perl. The application also
relies upon a relational database management system (RDBMS), such as
Oracle, MySQL, PostgreSQL or Sybase for gathering the data, and uses
Paul Boutell's libgd c library and Lincoln Stein's GD Perl module to
draw the maps. CMap can also create SVG.
To verify the integrity of the tarball, run "cpansign -v" (if you have
installed GnuPG and Module::Signature).
To install, follow the directions in the file called "INSTALL.pod."
You will probably want to use the "perldoc" application to view this
file (e.g. "perldoc INSTALL.pod"). After installation, this file will
exist in the "HTDOCS" directory you indicate as "INSTALL.html."
If you want to understand the code further, especially to customize or
extend it, read "docs/CODE_OVERVIEW.pod."
To understand how to load and curate data as well as how to generally
administrate CMap, please read "docs/ADMINISTRATION.pod."
If you have questions, write the CMap development list at
"gmod-cmap@lists.sourceforge.net" or the authors at "faga@cshl.edu" or
"kclark@cshl.edu".
---------------------------------------------------------------------
Patch Contributors
David Schibeci (dschibeci@ccg.murdoch.edu.au)
Centre for Comparative Genomics, Murdoch University
Molecular Plant Breeding Cooperative Research Centre

About
A browser-based tool for the visual comparison of various maps (sequence, genetic, etc.) from any number of species. 
Resources
Readme
License
Activity
Custom properties
Stars
5 stars
Watchers
6 watching
Forks
2 forks
Report repository
Releases
Packages
Contributors
Languages

, '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
BranchesTags
Repository files navigation
 CMAP README
CMap is a web-based application for graphically comparing genomic
maps. It was originally written for the Gramene project
(http://www.gramene.org/) under the supervision of Drs. Lincoln Stein
and Doreen Ware at Cold Spring Harbor Laboratories for comparing crop
grasses (rice, wheat, oat, barley, sorghum, etc.). CMap was then
altered to be able to handle more types of data than just plants and
was subsequently incorporated into the Generic Model Organism Database
toolkit (http://www.gmod.org/).
The application is written entirely in Perl. The application also
relies upon a relational database management system (RDBMS), such as
Oracle, MySQL, PostgreSQL or Sybase for gathering the data, and uses
Paul Boutell's libgd c library and Lincoln Stein's GD Perl module to
draw the maps. CMap can also create SVG.
To verify the integrity of the tarball, run "cpansign -v" (if you have
installed GnuPG and Module::Signature).
To install, follow the directions in the file called "INSTALL.pod."
You will probably want to use the "perldoc" application to view this
file (e.g. "perldoc INSTALL.pod"). After installation, this file will
exist in the "HTDOCS" directory you indicate as "INSTALL.html."
If you want to understand the code further, especially to customize or
extend it, read "docs/CODE_OVERVIEW.pod."
To understand how to load and curate data as well as how to generally
administrate CMap, please read "docs/ADMINISTRATION.pod."
If you have questions, write the CMap development list at
"gmod-cmap@lists.sourceforge.net" or the authors at "faga@cshl.edu" or
"kclark@cshl.edu".
---------------------------------------------------------------------
Patch Contributors
David Schibeci (dschibeci@ccg.murdoch.edu.au)
Centre for Comparative Genomics, Murdoch University
Molecular Plant Breeding Cooperative Research Centre

About
A browser-based tool for the visual comparison of various maps (sequence, genetic, etc.) from any number of species. 
Resources
Readme
License
Activity
Custom properties
Stars
5 stars
Watchers
6 watching
Forks
2 forks
Report repository
Releases
Packages
Contributors
Languages

, '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
Repository files navigation
 CMAP README
CMap is a web-based application for graphically comparing genomic
maps. It was originally written for the Gramene project
(http://www.gramene.org/) under the supervision of Drs. Lincoln Stein
and Doreen Ware at Cold Spring Harbor Laboratories for comparing crop
grasses (rice, wheat, oat, barley, sorghum, etc.). CMap was then
altered to be able to handle more types of data than just plants and
was subsequently incorporated into the Generic Model Organism Database
toolkit (http://www.gmod.org/).
The application is written entirely in Perl. The application also
relies upon a relational database management system (RDBMS), such as
Oracle, MySQL, PostgreSQL or Sybase for gathering the data, and uses
Paul Boutell's libgd c library and Lincoln Stein's GD Perl module to
draw the maps. CMap can also create SVG.
To verify the integrity of the tarball, run "cpansign -v" (if you have
installed GnuPG and Module::Signature).
To install, follow the directions in the file called "INSTALL.pod."
You will probably want to use the "perldoc" application to view this
file (e.g. "perldoc INSTALL.pod"). After installation, this file will
exist in the "HTDOCS" directory you indicate as "INSTALL.html."
If you want to understand the code further, especially to customize or
extend it, read "docs/CODE_OVERVIEW.pod."
To understand how to load and curate data as well as how to generally
administrate CMap, please read "docs/ADMINISTRATION.pod."
If you have questions, write the CMap development list at
"gmod-cmap@lists.sourceforge.net" or the authors at "faga@cshl.edu" or
"kclark@cshl.edu".
---------------------------------------------------------------------
Patch Contributors
David Schibeci (dschibeci@ccg.murdoch.edu.au)
Centre for Comparative Genomics, Murdoch University
Molecular Plant Breeding Cooperative Research Centre

About
A browser-based tool for the visual comparison of various maps (sequence, genetic, etc.) from any number of species. 
Resources
Readme
License
Activity
Custom properties
Stars
5 stars
Watchers
6 watching
Forks
2 forks
Report repository
Releases
Packages
Contributors
Languages

, '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
Repository files navigation
 CMAP README
CMap is a web-based application for graphically comparing genomic
maps. It was originally written for the Gramene project
(http://www.gramene.org/) under the supervision of Drs. Lincoln Stein
and Doreen Ware at Cold Spring Harbor Laboratories for comparing crop
grasses (rice, wheat, oat, barley, sorghum, etc.). CMap was then
altered to be able to handle more types of data than just plants and
was subsequently incorporated into the Generic Model Organism Database
toolkit (http://www.gmod.org/).
The application is written entirely in Perl. The application also
relies upon a relational database management system (RDBMS), such as
Oracle, MySQL, PostgreSQL or Sybase for gathering the data, and uses
Paul Boutell's libgd c library and Lincoln Stein's GD Perl module to
draw the maps. CMap can also create SVG.
To verify the integrity of the tarball, run "cpansign -v" (if you have
installed GnuPG and Module::Signature).
To install, follow the directions in the file called "INSTALL.pod."
You will probably want to use the "perldoc" application to view this
file (e.g. "perldoc INSTALL.pod"). After installation, this file will
exist in the "HTDOCS" directory you indicate as "INSTALL.html."
If you want to understand the code further, especially to customize or
extend it, read "docs/CODE_OVERVIEW.pod."
To understand how to load and curate data as well as how to generally
administrate CMap, please read "docs/ADMINISTRATION.pod."
If you have questions, write the CMap development list at
"gmod-cmap@lists.sourceforge.net" or the authors at "faga@cshl.edu" or
"kclark@cshl.edu".
---------------------------------------------------------------------
Patch Contributors
David Schibeci (dschibeci@ccg.murdoch.edu.au)
Centre for Comparative Genomics, Murdoch University
Molecular Plant Breeding Cooperative Research Centre

About
A browser-based tool for the visual comparison of various maps (sequence, genetic, etc.) from any number of species. 
Resources
Readme
License
Activity
Custom properties
Stars
5 stars
Watchers
6 watching
Forks
2 forks
Report repository
Releases
Packages
Contributors
Languages

, '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
BranchesTags
Repository files navigation
 CMAP README
CMap is a web-based application for graphically comparing genomic
maps. It was originally written for the Gramene project
(http://www.gramene.org/) under the supervision of Drs. Lincoln Stein
and Doreen Ware at Cold Spring Harbor Laboratories for comparing crop
grasses (rice, wheat, oat, barley, sorghum, etc.). CMap was then
altered to be able to handle more types of data than just plants and
was subsequently incorporated into the Generic Model Organism Database
toolkit (http://www.gmod.org/).
The application is written entirely in Perl. The application also
relies upon a relational database management system (RDBMS), such as
Oracle, MySQL, PostgreSQL or Sybase for gathering the data, and uses
Paul Boutell's libgd c library and Lincoln Stein's GD Perl module to
draw the maps. CMap can also create SVG.
To verify the integrity of the tarball, run "cpansign -v" (if you have
installed GnuPG and Module::Signature).
To install, follow the directions in the file called "INSTALL.pod."
You will probably want to use the "perldoc" application to view this
file (e.g. "perldoc INSTALL.pod"). After installation, this file will
exist in the "HTDOCS" directory you indicate as "INSTALL.html."
If you want to understand the code further, especially to customize or
extend it, read "docs/CODE_OVERVIEW.pod."
To understand how to load and curate data as well as how to generally
administrate CMap, please read "docs/ADMINISTRATION.pod."
If you have questions, write the CMap development list at
"gmod-cmap@lists.sourceforge.net" or the authors at "faga@cshl.edu" or
"kclark@cshl.edu".
---------------------------------------------------------------------
Patch Contributors
David Schibeci (dschibeci@ccg.murdoch.edu.au)
Centre for Comparative Genomics, Murdoch University
Molecular Plant Breeding Cooperative Research Centre

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A browser-based tool for the visual comparison of various maps (sequence, genetic, etc.) from any number of species. 
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