Cufflinks

Cufflinks

Cole Trapnell
Bioconductor Cufflinks

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Bioconductor:

About

The Bioconductor project aims to develop and share open source software for precise and repeatable analysis of biological data. We foster an inclusive and collaborative community of developers and data scientists. Resources to maximize the potential of Bioconductor. From basic functionalities to advanced features, our tutorials, guides, and documentation have you covered. Bioconductor uses the R statistical programming language and is open source and open development. It has two releases each year and an active user community. Bioconductor provides Docker images for every release and provides support for Bioconductor use in AnVIL. Founded in 2001, Bioconductor is an open-source software project widely used in bioinformatics and biomedical research. It hosts over 2,000 R packages contributed by over 1,000 developers, with over 40 million downloads per year. Bioconductor has been cited in more than 60,000 scientific publications.
Cufflinks:

About

Cufflinks assemble transcripts, estimate their abundances and test for differential expression and regulation in RNA-Seq samples. It accepts aligned RNA-Seq reads and assembles the alignments into a parsimonious set of transcripts. Cufflinks then estimates the relative abundances of these transcripts based on how many reads support each one, taking into account biases in library preparation protocols. Cufflinks was originally developed as part of a collaborative effort between the Laboratory for Mathematical and Computational Biology. In order to make it easy to install Cufflinks, we provide a few binary packages to save users from the occasionally frustrating process of building Cufflinks, which requires that you install the libraries. Cufflinks includes a number of tools for analyzing RNA-Seq experiments. Some of these tools can be run on their own, while others are pieces of a larger workflow.
Bioconductor:

Platforms Supported

Windows Supported
Mac Supported
Linux Supported
Cloud Not Supported
On-Premises Not Supported
iPhone Not Supported
iPad Not Supported
Android Not Supported
Chromebook Not Supported
Cufflinks:

Platforms Supported

Windows Supported
Mac Supported
Linux Supported
Cloud Not Supported
On-Premises Not Supported
iPhone Not Supported
iPad Not Supported
Android Not Supported
Chromebook Not Supported
Bioconductor:

Audience

Labs looking for a solution to improve their bioinformatics and biomedical research
Cufflinks:

Audience

Scientists requiring a solution to analyze their RNA-Seq samples
Bioconductor:

Support

Phone Support Not Supported
24/7 Live Support Not Supported
Online Supported
Cufflinks:

Support

Phone Support Not Supported
24/7 Live Support Not Supported
Online Supported
Bioconductor:

API

Offers API Not Supported
Cufflinks:

API

Offers API Not Supported
Bioconductor:

Screenshots and Videos

Cufflinks:

Screenshots and Videos

Bioconductor:

Pricing

Free
Free Version Supported
Free Trial Not Supported
Cufflinks:

Pricing

Free
Free Version Supported
Free Trial Not Supported
Bioconductor:

Reviews/Ratings

Overall 0.0 / 5
ease 0.0 / 5
features 0.0 / 5
design 0.0 / 5
support 0.0 / 5

This software hasn't been reviewed yet. Be the first to provide a review:

Review this Software
Cufflinks:

Reviews/Ratings

Overall 0.0 / 5
ease 0.0 / 5
features 0.0 / 5
design 0.0 / 5
support 0.0 / 5

This software hasn't been reviewed yet. Be the first to provide a review:

Review this Software
Bioconductor:

Training

Documentation Supported
Webinars Not Supported
Live Online Not Supported
In Person Not Supported
Cufflinks:

Training

Documentation Supported
Webinars Not Supported
Live Online Not Supported
In Person Not Supported
Bioconductor:

Company Information

Bioconductor
Founded: 2001
United States
www.bioconductor.org
Cufflinks:

Company Information

Cole Trapnell
Founded: 2017
United States
cole-trapnell-lab.github.io/cufflinks/
Bioconductor:

Alternatives

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Cufflinks:

Alternatives

QIAGEN CLC Genomics Workbench

QIAGEN CLC Genomics Workbench

QIAGEN Digital Insights
Bioconductor:
Cufflinks:
Bioconductor:
Cufflinks:
Bioconductor:
QIAGEN CLC Genomics Workbench

QIAGEN CLC Genomics Workbench

QIAGEN Digital Insights
Cufflinks:
Bioconductor:
Cufflinks:
Bioconductor:

Categories

Cufflinks:

Categories

Bioconductor:

Integrations

Docker Supported
R Supported
Cufflinks:

Integrations

Docker Not Supported
R Not Supported
Bioconductor:
Claim Bioconductor and update features and information
Claim Bioconductor and update features and information
Cufflinks:
Claim Cufflinks and update features and information
Claim Cufflinks and update features and information