https://github.com/usnistgov/mosaic

A modular single-molecule analysis interface
https://github.com/usnistgov/mosaic

nanopore python signal-processing single-molecule time-series

Last synced: 27 days ago
JSON representation

A modular single-molecule analysis interface

• Host: GitHub
• URL: https://github.com/usnistgov/mosaic
• Owner: usnistgov
• License: other
• Created: 2014-10-29T03:44:21.000Z (over 10 years ago)
• Default Branch: master
• Last Pushed: 2023-07-06T23:38:03.000Z (almost 2 years ago)
• Last Synced: 2024-09-18T20:20:58.849Z (7 months ago)
• Topics: nanopore, python, signal-processing, single-molecule, time-series
• Language: Python
• Homepage: https://pages.nist.gov/mosaic/
• Size: 308 MB
• Stars: 37
• Watchers: 12
• Forks: 17
• Open Issues: 10
• Metadata Files:
  • Readme: README.rst
  • Changelog: CHANGELOG.rst
  • License: LICENSE.rst

Awesome Lists containing this project

• awesome-python-applications - Repo - based single molecule analysis toolbox that automatically decodes multi-state nanopore data. `(linux, windows, mac, gov)` (<a id="tag-science" href="#tag-science">Science</a>)
• awesome-python-applications - Repo - based single molecule analysis toolbox that automatically decodes multi-state nanopore data. `(linux, windows, mac, gov)` (<a id="tag-science" href="#tag-science">Science</a>)

README

        
.. image:: https://img.shields.io/travis/com/usnistgov/mosaic/master?label=linux

		:target: https://travis-ci.com/github/usnistgov/mosaic

.. image:: https://img.shields.io/travis/com/usnistgov/mosaic/master?label=macOS

		:target: https://travis-ci.com/github/usnistgov/mosaic

.. image:: https://img.shields.io/github/v/release/usnistgov/mosaic

		:target: https://github.com/usnistgov/mosaic

.. image:: https://img.shields.io/pypi/v/mosaic-nist.svg

	:target: https://pypi.org/project/mosaic-nist/

.. image:: https://img.shields.io/pypi/dm/mosaic-nist

   	:target: https://pypi.org/project/mosaic-nist/

.. image:: https://codecov.io/gh/usnistgov/mosaic/branch/master/graph/badge.svg

	:target: https://codecov.io/gh/usnistgov/mosaic  

.. image:: https://img.shields.io/badge/dev-NIST-blue

	:target: https://www.nist.gov

	

MOSAIC: A modular single-molecule analysis interface

==================================================================

MOSAIC is a single molecule analysis toolbox that automatically decodes multi-state nanopore data. By modeling the nanopore system with an equivalent circuit, MOSAIC leverages the transient response of a molecule entering the channel to quantify pore-molecule interactions. In contrast to existing techniques such as ionic current thresholding or Viterbi decoding, this technique allows the estimation of short-lived transient events that are otherwise not analyzed.

Nanometer-scale pores have demonstrated potential use in biotechnology applications, including DNA sequencing, single-molecule force spectroscopy, and single-molecule mass spectrometry. The data modeling and analysis methods implemented in MOSAIC allow for dramatic improvements in the quantification of molecular interactions with the channel in each of these applications.

**If you use MOSAIC in your work, please cite both papers below:**

1. `Analytical Chemistry 2016, (88) pp. 11900–11907  `_

2. `ACS Nano 2014, (8) pp. 1547–1553.  `_

Installation

==================================================================

Please refer to the `Installation `_ section of the MOSAIC documentation for details on installation.

Documentation

==================================================================

A PDF version of the MOSAIC documentation can be downloaded `here `_.

Getting Help

==================================================================

If you need help or have questions, please join our mailing list.

To subscribe:

	Visit `https://groups.google.com/a/list.nist.gov/group/mosaic/ `_.

To unsubscribe:

	Email `mosaic+unsubscribe@list.nist.gov `_.

Once subscribed, you can send messages by emailing `mosaic@list.nist.gov `_.

Reporting Problems

==================================================================

Report problems using our `issue tracker `_ on Github.

What's New?

==================================================================

Read the `Change Log `_