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ScRNA.seq.datasets

screenshot of ScRNA.seq.datasets
mkdocs

Collection of public scRNA-Seq datasets used by our group

GithubDemo

Overview:

The Public scRNA-Seq Datasets repository is used to construct scater objects and reports from various publicly available scRNA-Seq datasets. The pipeline is built using docker containers and cloud computing, resulting in a website where the data and annotations can be accessed.

Features:

  • Automated Reports: Generate reports in a continuous integration manner.
  • Docker Containers: Implement the pipeline using docker containers for easy deployment.
  • Cloud Computing: Utilize cloud computing resources for data processing and analysis.
  • Website Generation: Build a website using the MkDocs generator to present the data and annotations.
  • S3 Storage Integration: Ability to list files and upload data to S3 storage.
  • Instance Setup Guides: Detailed guides on setting up instances on AWS and OpenStack.
  • Jenkins Integration: Install Jenkins for automation and easily run docker images.
  • Data Security: Secure access to instances and permissions for running Docker and uploading data.

Summary:

The Public scRNA-Seq Datasets repository offers a comprehensive solution for building scater objects and reports from publicly available scRNA-Seq datasets. By leveraging docker containers, cloud computing, and automation tools like Jenkins, the pipeline streamlines the process of data analysis. Detailed guides for setting up instances on AWS and OpenStack ensure a smooth deployment process, while features like S3 storage integration and website generation enhance accessibility and data management for researchers.

mkdocs
MkDocs

MkDocs is a fast, simple and downright gorgeous static site generator that's geared towards building project documentation. Documentation source files are written in Markdown, and configured with a single YAML configuration file.

docker
Docker

A website that uses Docker for containerization to streamline development, testing, and deployment workflows. This includes features such as containerization of dependencies, automated builds and deployments, and container orchestration to ensure scalability and availability.