nextstrain / cliLinks
The Nextstrain command-line interface (CLI)—a program called nextstrain—which aims to provide a consistent way to run and visualize pathogen builds and access Nextstrain components like Augur and Auspice across computing environments such as Docker, Conda, and AWS Batch.
☆27Updated 2 weeks ago
Alternatives and similar repositories for cli
Users that are interested in cli are comparing it to the libraries listed below
Sorting:
- A pipeline that ingests SARS-CoV-2 (i.e. nCoV) data from GISAID and Genbank, transforms it, stores it on S3, and triggers Nextstrain nCoV…☆36Updated last month
- The command-line interface to GGD☆43Updated 2 years ago
- ☆36Updated 2 months ago
- Class materials for the NIH HPC snakemake class☆16Updated 9 months ago
- ☆19Updated 9 years ago
- Draw genetic elements with HTML & CSS☆16Updated 8 years ago
- Self-guided educational workshop for ChIP-Seq and RNA-Seq☆14Updated 4 years ago
- Proof of concept to use ansible + Lmod to deploy a bioinformatics server☆24Updated 3 weeks ago
- GenPipes Read the Docs repository☆21Updated last month
- A set of CWL tools and workflows used by NCBI Computational Biology Branch for NGS data analysis☆24Updated last year
- Utilities for building and managing bioconda recipes☆102Updated this week
- ☆54Updated 2 months ago
- Example usage of the Benchling API: https://docs.benchling.com/☆33Updated 2 weeks ago
- Project Manager for NGS data analysis☆31Updated 2 years ago
- Bioinformatics with Unix, bash, Make, Python, and parallel☆22Updated 4 years ago
- Dockerfiles to build Biopython instances☆28Updated 8 years ago
- Java software to analyse phylogeny-trait correlations in discrete traits, accounting for phylogenetic uncertainty via posterior sampling.☆11Updated 7 years ago
- Indexing & querying large assembly graphs -- in space, no one can hear you miao!☆117Updated last year
- Seven Bridges Python library for programatic generation of CWL workflows.☆20Updated 2 years ago
- Scripts for miscelleneous bioinformatics tasks☆48Updated 5 years ago
- A cookiecutter template for Snakemake workflows☆59Updated 3 years ago
- Documentation for NCBI BLAST AMI☆12Updated 3 years ago
- Visualization and charting JS library for streaming genomic data☆19Updated 6 months ago
- Microbiome Analysis Plotting and Visualization☆11Updated 2 weeks ago
- A software tool for personalized and allele-specific CRISPR editing.☆17Updated 3 years ago
- An open-source, cloud-ready web application for simplified deployment of big data workflows.☆33Updated last month
- Documentation of the Snakemake-Profiles project.☆54Updated 3 years ago
- Standard for describing and searching biomedical data developed by the Global Alliance for Genomics & Health.☆24Updated last year
- Platform for integrating genomic analysis with Jupyter Notebooks.☆44Updated 10 months ago
- Freelance bioinformaticians directory☆9Updated 2 years ago