Cufflinks

Cufflinks

Cole Trapnell
OmicsBox

OmicsBox

BioBam Bioinformatics S.L.
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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.

About

OmicsBox is a leading bioinformatics solution that offers end-to-end data analysis of genomes, transcriptomes, metagenomes, and genetic variation studies. The application is used by top private and public research institutions worldwide and allows researchers to easily process large and complex data sets, and streamline their analysis process. It is designed to be user-friendly, efficient, and with a powerful set of tools to extract biological insights from omics data. The software is structured in different modules, each with a specific set of tools and functions designed to perform different types of analysis, such as de-novo genome assemblies, genetic variation analysis, differential expression analysis, and taxonomic classifications of microbiome data, including the functional interpretation and rich visualizations of results. The functional analysis module includes the popular Blast2GO annotation methodology and makes OmicsBox particularly suited for non-model organism research

Platforms Supported

Windows
Mac
Linux
Cloud
On-Premises
iPhone
iPad
Android
Chromebook

Platforms Supported

Windows
Mac
Linux
Cloud
On-Premises
iPhone
iPad
Android
Chromebook

Audience

Scientists requiring a solution to analyze their RNA-Seq samples

Audience

Researcher Scientists from Private and Public Research Institutions

Support

Phone Support
24/7 Live Support
Online

Support

Phone Support
24/7 Live Support
Online

API

Offers API

API

Offers API

Screenshots and Videos

Screenshots and Videos

Pricing

Free
Free Version
Free Trial

Pricing

€100/month/seat
Free Version
Free Trial

Reviews/Ratings

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

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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

Training

Documentation
Webinars
Live Online
In Person

Training

Documentation
Webinars
Live Online
In Person

Company Information

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

Company Information

BioBam Bioinformatics S.L.
Founded: 2011
Spain
www.biobam.com

Alternatives

QIAGEN CLC Genomics Workbench

QIAGEN CLC Genomics Workbench

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Alternatives

Pluto

Pluto

Pluto Biosciences
Partek Flow

Partek Flow

Partek
QIAGEN CLC Genomics Workbench

QIAGEN CLC Genomics Workbench

QIAGEN Digital Insights
OmicsBox

OmicsBox

BioBam Bioinformatics S.L.
GenomeStudio

GenomeStudio

Illumina
GenomeStudio

GenomeStudio

Illumina

Categories

Categories

Integrations

No info available.

Integrations

No info available.
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