CufflinksCole Trapnell
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ESMFoldMeta
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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.
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About
ESMFold shows how AI can give us new tools to understand the natural world, much like the microscope, which enabled us to see into the world at an infinitesimal scale and opened up a whole new understanding of life. AI can help us understand the immense scope of natural diversity, and see biology in a new way. Much of AI research has focused on helping computers understand the world in a way similar to how humans do. The language of proteins is one that is beyond human comprehension and has eluded even the most powerful computational tools. AI has the potential to open up this language to our understanding. Studying AI in new domains such as biology can also give insight into artificial intelligence more broadly. Our work reveals connections across domains: large language models that are behind advances in machine translation, natural language understanding, speech recognition, and image generation are also able to learn deep information about biology.
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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
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Platforms Supported
Windows
Not Supported
Mac
Not Supported
Linux
Not Supported
Cloud
Supported
On-Premises
Supported
iPhone
Not Supported
iPad
Not Supported
Android
Not Supported
Chromebook
Not Supported
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Audience
Scientists requiring a solution to analyze their RNA-Seq samples
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Audience
Researchers interested in a language model for proteins and genomics
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Support
Phone Support
Not Supported
24/7 Live Support
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Online
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Support
Phone Support
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24/7 Live Support
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Online
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API
Offers API
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API
Offers API
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Pricing
Free
Free Version
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Free Trial
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Pricing
Free
Free Version
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Free Trial
Not Supported
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Reviews/
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Reviews/
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Training
Documentation
Supported
Webinars
Not Supported
Live Online
Not Supported
In Person
Not Supported
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Training
Documentation
Supported
Webinars
Not Supported
Live Online
Not Supported
In Person
Not Supported
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Company InformationCole Trapnell
Founded: 2017
United States
cole-trapnell-lab.github.io/cufflinks/
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Company InformationMeta
Founded: 2004
United States
github.com/facebookresearch/esm
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Integrations
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Integrations
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