A genome inference module based on recurrent neural networks that enables long-read variant calling and nanopore assembly polishing in the PEPPER-Margin-DeepVariant pipeline.
A genome inference module based on recurrent neural networks that enables long-read variant calling and nanopore assembly polishing in the PEPPER-Margin-DeepVariant pipeline.
A pipeline for nanopore-based variant calling with DeepVariant, using PEPPER as a genome inference module based on recurrent neural networks.
What customers say
“GitHub Copilot will bring huge benefits to our engineering teams by reducing the amount of time spent on boilerplate code, keeping the teams in their flow state, allowing them to ship high-quality products to market faster.”
“At Uber, we continuously strive to improve our developer experience. We migrated code hosting and review to GitHub and are adopting GitHub Copilot to boost overall developer productivity.”
Ali-Reza Adl-Tabatabai Senior Director of Engineering @ UberPEPPER-Margin-DeepVariant customer
“GitHub's endless plug-ins, beautiful UI, and optimized workflows make devs happy. Happy and empowered engineers write the best code, make better decisions, and have more time to innovate.”
Jen Peck Senior Director of Engineering @ RedfinPEPPER-Margin-DeepVariant customer
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Claude Opus 5 Model Integrated into GitHub Copilot
GitHub has integrated Anthropic’s Claude Opus 5 model into GitHub Copilot. The model is specifically designed for complex, agentic coding tasks requiring multi-step reasoning, tool coordination, and autonomous validation. It includes updated security safeguards for cyber-related content and is available to Copilot Pro+, Max, Business, and Enterprise users across multiple interfaces, including VS Code and GitHub Mobile.
GitHub Mobile Adds Copilot-Powered Fixes for Actions Failures
GitHub Mobile now enables users to address failing GitHub Actions checks directly from their iOS or Android devices. By selecting the 'Fix with Copilot' option on a failed check, the Copilot coding agent analyzes the failure, generates a fix, and opens a new pull request. This workflow allows developers to monitor and resolve CI/CD issues while away from their primary development environment.
Company news
GitHub MCP Server Updates Support for Stateless Specification
GitHub has updated its MCP (Model Context Protocol) Server to support the upcoming stateless MCP specification ahead of its official release on July 28, 2026. The update introduces performance improvements, including the removal of Redis sessions, reduced packet inspection overhead, and optimized elicitation implementations via the Go SDK. These changes are intended to improve scalability and connection speed for MCP-based deployments.
New featurePartnership
GitHub Copilot Cloud Agent Now Integrated with Linear
The GitHub Copilot cloud agent is now generally available for Linear integration. Users can assign Linear issues to the agent, which then autonomously analyzes content, drafts pull requests, and updates the task status directly within the Linear activity timeline. The integration offers customizable settings, such as model selection and custom agent workflows, to help streamline development tasks. It is accessible to users with Copilot Pro, Pro+, Business, and Enterprise plans via the GitHub Marketplace.
