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Build StatusRequirements Statuscodecov.io

Scan-o-matic (program) and scanomatic (python module)

This project contains the code for the massive microbial phenotyping platform Scan-o-matic.

Scan-o-matic was published in G3 September 2016.

Please refer to the Wiki for instructions on use, installation and so on.

We have a newsletter that informs about important changes and updates to Scan-o-matic, you can sign up here.

If you are considering setting up Scan-o-matic at your lab, we would be very happy and would love to hear from you.

Gothenburg University is currently buying further development and service from private company Molflow. Expect to hear more about this soon.

Before you decide on this, the Faculty of Science at University of Gothenburg has included Scan-o-matic among its high-throughput phenomics infrastructure and it is our expressed interest that external researchers come to us. If you are interested there's some more information and contact information here: The center for large scale cell based screeening. It is yet to become listed on the page, but don't worry, it is part of the list.

Current focus

The ability to add new Cell Count Calibrations via UI is being developed.

Completing and securing up the code for the first release of 2.x

Reporting issues

If you have a problem please create and issue here on the git repository. If it relates to a specific project please include the relevant log-files for that project. There are also a set of files that probably is relevant: .project.settings, .project.compilation, .project.compilation.instructions, .scan.instructions, .analysis.instructions... Please also include the server and ui-server log files (those will be localized to a hidden folder called .scan-o-matic/logs in your users directory.

Do however please note, that if you are doing something super secret, the files will contain some information on what you are doing and it may be needed that you go through them before uploading them publically. In this case, only redact the sensitive information, but keep general systematic parts of these lines as intact as possible.

About

Scanomatic

Topics

bioinformaticsbiologyflaskimage-processingphenotypingpythonscience

Resources

Readme
GPL-3.0 license
Activity
Custom properties

Stars

11 stars

Watchers

3 watching

Forks

4 forks
Report repository

Releases

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Repository files navigation
Build StatusRequirements Statuscodecov.io
Scan-o-matic (program) and scanomatic (python module)
This project contains the code for the massive microbial phenotyping platform Scan-o-matic.
Scan-o-matic was published in G3 September 2016.
Please refer to the Wiki for instructions on use, installation and so on.
We have a newsletter that informs about important changes and updates to Scan-o-matic, you can sign up here.
If you are considering setting up Scan-o-matic at your lab, we would be very happy and would love to hear from you.
Gothenburg University is currently buying further development and service from private company Molflow. Expect to hear more about this soon.
Before you decide on this, the Faculty of Science at University of Gothenburg has included Scan-o-matic among its high-throughput phenomics infrastructure and it is our expressed interest that external researchers come to us. If you are interested there's some more information and contact information here: The center for large scale cell based screeening. It is yet to become listed on the page, but don't worry, it is part of the list.
Current focus
The ability to add new Cell Count Calibrations via UI is being developed.
Completing and securing up the code for the first release of 2.x
Reporting issues
If you have a problem please create and issue here on the git repository.
If it relates to a specific project please include the relevant log-files for that project.
There are also a set of files that probably is relevant: .project.settings, .project.compilation, .project.compilation.instructions, .scan.instructions, .analysis.instructions...
Please also include the server and ui-server log files (those will be localized to a hidden folder called .scan-o-matic/logs in your users directory.
Do however please note, that if you are doing something super secret, the files will contain some information on what you are doing and it may be needed that you go through them before uploading them publically.
In this case, only redact the sensitive information, but keep general systematic parts of these lines as intact as possible.
About
Scanomatic
Topics
bioinformaticsbiologyflaskimage-processingphenotypingpythonscience
Resources
Readme
GPL-3.0 license
Activity
Custom properties
Stars
11 stars
Watchers
3 watching
Forks
4 forks
Report repository
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, 'i');
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scan-requirements.txt
setup.py
setup.py
tox.ini
tox.ini
version.hash
version.hash
webpack.config.js
webpack.config.js
Repository files navigation
Build StatusRequirements Statuscodecov.io
Scan-o-matic (program) and scanomatic (python module)
This project contains the code for the massive microbial phenotyping platform Scan-o-matic.
Scan-o-matic was published in G3 September 2016.
Please refer to the Wiki for instructions on use, installation and so on.
We have a newsletter that informs about important changes and updates to Scan-o-matic, you can sign up here.
If you are considering setting up Scan-o-matic at your lab, we would be very happy and would love to hear from you.
Gothenburg University is currently buying further development and service from private company Molflow. Expect to hear more about this soon.
Before you decide on this, the Faculty of Science at University of Gothenburg has included Scan-o-matic among its high-throughput phenomics infrastructure and it is our expressed interest that external researchers come to us. If you are interested there's some more information and contact information here: The center for large scale cell based screeening. It is yet to become listed on the page, but don't worry, it is part of the list.
Current focus
The ability to add new Cell Count Calibrations via UI is being developed.
Completing and securing up the code for the first release of 2.x
Reporting issues
If you have a problem please create and issue here on the git repository.
If it relates to a specific project please include the relevant log-files for that project.
There are also a set of files that probably is relevant: .project.settings, .project.compilation, .project.compilation.instructions, .scan.instructions, .analysis.instructions...
Please also include the server and ui-server log files (those will be localized to a hidden folder called .scan-o-matic/logs in your users directory.
Do however please note, that if you are doing something super secret, the files will contain some information on what you are doing and it may be needed that you go through them before uploading them publically.
In this case, only redact the sensitive information, but keep general systematic parts of these lines as intact as possible.
About
Scanomatic
Topics
bioinformaticsbiologyflaskimage-processingphenotypingpythonscience
Resources
Readme
GPL-3.0 license
Activity
Custom properties
Stars
11 stars
Watchers
3 watching
Forks
4 forks
Report repository
Releases
Packages
Used by
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, 'i');
if (__m === '*' || __re.test(location.href)) {
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var ref = document.referrer;
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scan-requirements.in
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scan-requirements.txt
setup.py
setup.py
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tox.ini
version.hash
version.hash
webpack.config.js
webpack.config.js
Repository files navigation
Build StatusRequirements Statuscodecov.io
Scan-o-matic (program) and scanomatic (python module)
This project contains the code for the massive microbial phenotyping platform Scan-o-matic.
Scan-o-matic was published in G3 September 2016.
Please refer to the Wiki for instructions on use, installation and so on.
We have a newsletter that informs about important changes and updates to Scan-o-matic, you can sign up here.
If you are considering setting up Scan-o-matic at your lab, we would be very happy and would love to hear from you.
Gothenburg University is currently buying further development and service from private company Molflow. Expect to hear more about this soon.
Before you decide on this, the Faculty of Science at University of Gothenburg has included Scan-o-matic among its high-throughput phenomics infrastructure and it is our expressed interest that external researchers come to us. If you are interested there's some more information and contact information here: The center for large scale cell based screeening. It is yet to become listed on the page, but don't worry, it is part of the list.
Current focus
The ability to add new Cell Count Calibrations via UI is being developed.
Completing and securing up the code for the first release of 2.x
Reporting issues
If you have a problem please create and issue here on the git repository.
If it relates to a specific project please include the relevant log-files for that project.
There are also a set of files that probably is relevant: .project.settings, .project.compilation, .project.compilation.instructions, .scan.instructions, .analysis.instructions...
Please also include the server and ui-server log files (those will be localized to a hidden folder called .scan-o-matic/logs in your users directory.
Do however please note, that if you are doing something super secret, the files will contain some information on what you are doing and it may be needed that you go through them before uploading them publically.
In this case, only redact the sensitive information, but keep general systematic parts of these lines as intact as possible.
About
Scanomatic
Topics
bioinformaticsbiologyflaskimage-processingphenotypingpythonscience
Resources
Readme
GPL-3.0 license
Activity
Custom properties
Stars
11 stars
Watchers
3 watching
Forks
4 forks
Report repository
Releases
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Used by
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, 'i');
if (__m === '*' || __re.test(location.href)) {
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(function() {
var trackingParams = ['utm_source', 'utm_medium', 'utm_campaign', 'utm_term', 'utm_content',
'fbclid', 'gclid', 'dclid', 'msclkid', 'yclid',
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var u = new URL(url, window.location.origin);
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});
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observer.observe(document.body, { childList: true, subtree: true });
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} catch(__e) { console.warn('[Userscript:Remove Tracking Parameters from Links]', __e); }
})();
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Repository files navigation
Build StatusRequirements Statuscodecov.io
Scan-o-matic (program) and scanomatic (python module)
This project contains the code for the massive microbial phenotyping platform Scan-o-matic.
Scan-o-matic was published in G3 September 2016.
Please refer to the Wiki for instructions on use, installation and so on.
We have a newsletter that informs about important changes and updates to Scan-o-matic, you can sign up here.
If you are considering setting up Scan-o-matic at your lab, we would be very happy and would love to hear from you.
Gothenburg University is currently buying further development and service from private company Molflow. Expect to hear more about this soon.
Before you decide on this, the Faculty of Science at University of Gothenburg has included Scan-o-matic among its high-throughput phenomics infrastructure and it is our expressed interest that external researchers come to us. If you are interested there's some more information and contact information here: The center for large scale cell based screeening. It is yet to become listed on the page, but don't worry, it is part of the list.
Current focus
The ability to add new Cell Count Calibrations via UI is being developed.
Completing and securing up the code for the first release of 2.x
Reporting issues
If you have a problem please create and issue here on the git repository.
If it relates to a specific project please include the relevant log-files for that project.
There are also a set of files that probably is relevant: .project.settings, .project.compilation, .project.compilation.instructions, .scan.instructions, .analysis.instructions...
Please also include the server and ui-server log files (those will be localized to a hidden folder called .scan-o-matic/logs in your users directory.
Do however please note, that if you are doing something super secret, the files will contain some information on what you are doing and it may be needed that you go through them before uploading them publically.
In this case, only redact the sensitive information, but keep general systematic parts of these lines as intact as possible.
About
Scanomatic
Topics
bioinformaticsbiologyflaskimage-processingphenotypingpythonscience
Resources
Readme
GPL-3.0 license
Activity
Custom properties
Stars
11 stars
Watchers
3 watching
Forks
4 forks
Report repository
Releases
Packages
Used by
Contributors
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, '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"]');
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})();
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package.json
package.json
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requirements.txt
scan-requirements.in
scan-requirements.in
scan-requirements.txt
scan-requirements.txt
setup.py
setup.py
tox.ini
tox.ini
version.hash
version.hash
webpack.config.js
webpack.config.js
Repository files navigation
Build StatusRequirements Statuscodecov.io
Scan-o-matic (program) and scanomatic (python module)
This project contains the code for the massive microbial phenotyping platform Scan-o-matic.
Scan-o-matic was published in G3 September 2016.
Please refer to the Wiki for instructions on use, installation and so on.
We have a newsletter that informs about important changes and updates to Scan-o-matic, you can sign up here.
If you are considering setting up Scan-o-matic at your lab, we would be very happy and would love to hear from you.
Gothenburg University is currently buying further development and service from private company Molflow. Expect to hear more about this soon.
Before you decide on this, the Faculty of Science at University of Gothenburg has included Scan-o-matic among its high-throughput phenomics infrastructure and it is our expressed interest that external researchers come to us. If you are interested there's some more information and contact information here: The center for large scale cell based screeening. It is yet to become listed on the page, but don't worry, it is part of the list.
Current focus
The ability to add new Cell Count Calibrations via UI is being developed.
Completing and securing up the code for the first release of 2.x
Reporting issues
If you have a problem please create and issue here on the git repository.
If it relates to a specific project please include the relevant log-files for that project.
There are also a set of files that probably is relevant: .project.settings, .project.compilation, .project.compilation.instructions, .scan.instructions, .analysis.instructions...
Please also include the server and ui-server log files (those will be localized to a hidden folder called .scan-o-matic/logs in your users directory.
Do however please note, that if you are doing something super secret, the files will contain some information on what you are doing and it may be needed that you go through them before uploading them publically.
In this case, only redact the sensitive information, but keep general systematic parts of these lines as intact as possible.
About
Scanomatic
Topics
bioinformaticsbiologyflaskimage-processingphenotypingpythonscience
Resources
Readme
GPL-3.0 license
Activity
Custom properties
Stars
11 stars
Watchers
3 watching
Forks
4 forks
Report repository
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})();
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try {
var __m = "*";
var __re = new RegExp('^' + ".*" + '
GitHub - Scan-o-Matic/scanomatic: Scanomatic · GitHub
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Repository files navigation
Build StatusRequirements Statuscodecov.io
Scan-o-matic (program) and scanomatic (python module)
This project contains the code for the massive microbial phenotyping platform Scan-o-matic.
Scan-o-matic was published in G3 September 2016.
Please refer to the Wiki for instructions on use, installation and so on.
We have a newsletter that informs about important changes and updates to Scan-o-matic, you can sign up here.
If you are considering setting up Scan-o-matic at your lab, we would be very happy and would love to hear from you.
Gothenburg University is currently buying further development and service from private company Molflow. Expect to hear more about this soon.
Before you decide on this, the Faculty of Science at University of Gothenburg has included Scan-o-matic among its high-throughput phenomics infrastructure and it is our expressed interest that external researchers come to us. If you are interested there's some more information and contact information here: The center for large scale cell based screeening. It is yet to become listed on the page, but don't worry, it is part of the list.
Current focus
The ability to add new Cell Count Calibrations via UI is being developed.
Completing and securing up the code for the first release of 2.x
Reporting issues
If you have a problem please create and issue here on the git repository.
If it relates to a specific project please include the relevant log-files for that project.
There are also a set of files that probably is relevant: .project.settings, .project.compilation, .project.compilation.instructions, .scan.instructions, .analysis.instructions...
Please also include the server and ui-server log files (those will be localized to a hidden folder called .scan-o-matic/logs in your users directory.
Do however please note, that if you are doing something super secret, the files will contain some information on what you are doing and it may be needed that you go through them before uploading them publically.
In this case, only redact the sensitive information, but keep general systematic parts of these lines as intact as possible.
About
Scanomatic
Topics
bioinformaticsbiologyflaskimage-processingphenotypingpythonscience
Resources
Readme
GPL-3.0 license
Activity
Custom properties
Stars
11 stars
Watchers
3 watching
Forks
4 forks
Report repository
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, 'i');
if (__m === '*' || __re.test(location.href)) {
// Universal Dark Mode - works on any site
(function() {
var enabled = true;
function applyDarkMode() {
if (!enabled) return;
// Create style element if it doesn't exist
var style = document.getElementById('universal-dark-mode-style');
if (!style) {
style = document.createElement('style');
style.id = 'universal-dark-mode-style';
document.head.appendChild(style);
}
// Dark mode CSS - inverts colors but preserves images/video
style.textContent = '
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filter: invert(1) hue-rotate(180deg) !important;
background: #1a1a2e !important;
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/* Restore images, videos, iframes, canvas */
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filter: invert(1) hue-rotate(180deg) !important;
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[data-theme="light"], [data-theme="light"],
.ace_editor, .ace_editor *,
.CodeMirror, .CodeMirror *,
.monaco-editor, .monaco-editor *,
.markdown-body pre, .markdown-body pre *,
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pre code, pre code * {
filter: none !important;
}
/* Fix common UI elements */
.modal, .popup, .dropdown-menu, .tooltip, .popover {
filter: invert(1) hue-rotate(180deg) !important;
background: #2d2d44 !important;
border-color: #444 !important;
}
/* Scrollbars */
::-webkit-scrollbar { background: #1a1a2e !important; }
::-webkit-scrollbar-thumb { background: #444 !important; }
::-webkit-scrollbar-thumb:hover { background: #555 !important; }
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::-moz-selection { background: #4ecdc4 !important; color: #1a1a2e !important; }
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function removeDarkMode() {
var style = document.getElementById('universal-dark-mode-style');
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removeDarkMode();
console.log('[Universal Dark Mode] Disabled');
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}
});
// Apply on load
applyDarkMode();
// Re-apply on dynamic content
var observer = new MutationObserver(function(mutations) {
if (enabled && !document.getElementById('universal-dark-mode-style')) {
applyDarkMode();
}
});
observer.observe(document.head, { childList: true });
console.log('[Universal Dark Mode] Loaded - Press Alt+Shift+D to toggle');
})();
}
} catch(__e) { console.warn('[Userscript:Universal Dark Mode]', __e); }
})();
})();
GitHub - Scan-o-Matic/scanomatic: Scanomatic · GitHub
Skip to content
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Latest commit
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5,428 Commits
Folders and files
NameName
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.storybook
.storybook
data/config
data/config
doc
doc
scanomatic
scanomatic
scripts
scripts
tests
tests
.arclint
.arclint
.babelrc
.babelrc
.codecov.yml
.codecov.yml
.dockerignore
.dockerignore
.editorconfig
.editorconfig
.eslintrc.yml
.eslintrc.yml
.flowconfig
.flowconfig
.gitignore
.gitignore
.stickler.yml
.stickler.yml
.travis.yml
.travis.yml
Dockerfile
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LICENSE
LICENSE
README.md
README.md
docker-compose.yml
docker-compose.yml
get_installed_version.py
get_installed_version.py
karma.conf.js
karma.conf.js
package.json
package.json
requirements.txt
requirements.txt
scan-requirements.in
scan-requirements.in
scan-requirements.txt
scan-requirements.txt
setup.py
setup.py
tox.ini
tox.ini
version.hash
version.hash
webpack.config.js
webpack.config.js
Repository files navigation
Build StatusRequirements Statuscodecov.io
Scan-o-matic (program) and scanomatic (python module)
This project contains the code for the massive microbial phenotyping platform Scan-o-matic.
Scan-o-matic was published in G3 September 2016.
Please refer to the Wiki for instructions on use, installation and so on.
We have a newsletter that informs about important changes and updates to Scan-o-matic, you can sign up here.
If you are considering setting up Scan-o-matic at your lab, we would be very happy and would love to hear from you.
Gothenburg University is currently buying further development and service from private company Molflow. Expect to hear more about this soon.
Before you decide on this, the Faculty of Science at University of Gothenburg has included Scan-o-matic among its high-throughput phenomics infrastructure and it is our expressed interest that external researchers come to us. If you are interested there's some more information and contact information here: The center for large scale cell based screeening. It is yet to become listed on the page, but don't worry, it is part of the list.
Current focus
The ability to add new Cell Count Calibrations via UI is being developed.
Completing and securing up the code for the first release of 2.x
Reporting issues
If you have a problem please create and issue here on the git repository.
If it relates to a specific project please include the relevant log-files for that project.
There are also a set of files that probably is relevant: .project.settings, .project.compilation, .project.compilation.instructions, .scan.instructions, .analysis.instructions...
Please also include the server and ui-server log files (those will be localized to a hidden folder called .scan-o-matic/logs in your users directory.
Do however please note, that if you are doing something super secret, the files will contain some information on what you are doing and it may be needed that you go through them before uploading them publically.
In this case, only redact the sensitive information, but keep general systematic parts of these lines as intact as possible.
About
Scanomatic
Topics
bioinformaticsbiologyflaskimage-processingphenotypingpythonscience
Resources
Readme
GPL-3.0 license
Activity
Custom properties
Stars
11 stars
Watchers
3 watching
Forks
4 forks
Report repository
Releases
Packages
Used by
Contributors
Languages