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 this week
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 2 months ago
- biotoolsregistry : discovery portal for bioinformatics☆77Updated last week
- Utilities for building and managing bioconda recipes☆102Updated this week
- Proof of concept to use ansible + Lmod to deploy a bioinformatics server☆24Updated last month
- ☆37Updated 3 months ago
- A software tool for personalized and allele-specific CRISPR editing.☆17Updated 3 years ago
- GWAS Catalog Ontology and Curation Infrastructure☆26Updated last week
- COVID-19 Diagnostic Processing Dashboard☆20Updated 2 years ago
- Class materials for the NIH HPC snakemake class☆15Updated 9 months ago
- Self-guided educational workshop for ChIP-Seq and RNA-Seq☆14Updated 4 years ago
- This repository is meant for the participants of the BioHackathon hosted in Paris in Nov 2019 to share ideas, create issues, manage proje…☆23Updated 4 years ago
- Ansible Playbook for usegalaxy.org☆33Updated last week
- Project Manager for NGS data analysis☆31Updated 2 years ago
- Announcements related to ontology changes that may impact groups using GO, such as obsoletions, merges, etc.☆14Updated 2 years ago
- Standard for describing and searching biomedical data developed by the Global Alliance for Genomics & Health.☆24Updated last year
- The WES API is a standard way to run and manage portable workflows.☆85Updated 9 months ago
- GenPipes Read the Docs repository☆23Updated this week
- The snakemake interface, currently works like a notebook (under development)☆19Updated 3 years ago
- Automatic Input Documentation for WDL workflows☆12Updated 10 months ago
- Managing metadata and policy around metadata in NMDC☆2Updated last year
- ☆54Updated 2 months ago
- ☆19Updated 9 years ago
- ☆34Updated 2 years ago
- Draw genetic elements with HTML & CSS☆16Updated 8 years ago
- NanoDJ: A Dockerized Jupyter Notebook for Interactive Oxford Nanopore MinION Sequence Manipulation and Genome Assembly☆50Updated 5 years ago
- Platform for integrating genomic analysis with Jupyter Notebooks.☆44Updated 11 months ago
- Exercises for training scientists to perform some RNA-seq analyses.☆11Updated 5 years ago
- Tools Databases Resources in Metabolomics & Integrated Omics in 2015-2016☆12Updated 5 years ago
- Dockerfiles to build Biopython instances☆28Updated 8 years ago
- Distinguishing between generic and experiment-specific gene expression signals.☆12Updated 2 years ago