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There are three main ways to access OpenCGA data:
- RESTful Web Services and Clients
- Command Line Interface (CLI)
- Web data mining and visualisation
OpenCGA Demo
We have deployed a public demo installation to make easy the testing and development for all bioinformaticians and developers.
Data
This demo consists of three projects and five studies. These represents different assembly and type of data such as multi sample VCF, aggregated VCF or family genome or exome. The data
| Project | Study ID and Name | Samples | VCF Files | VCF File Type | Variants |
|---|---|---|---|---|---|
| Population Studies GRCh38 | 1000g - 1000 Genomes Project Phase 3 Name | 2,504 | 24 | Multi sample | |
uk10k UK10K Project | 10,000 | 1 | Agregated | 46,624,127 | |
| Family Studies GRCh37 | platinum - Platinum NA12877, NA12877 and NA12877 samples from platinum genomes | 3 | 3 | Multi sample | 8,456,984 |
corpasome - Corpas Family This study simulates two disorders and some phenotypes in the Corpas family for training purposes | 4 | 4 | Multi sample | 300,711 | |
| GRCh38 Somatic | rams_cml Chronic Myeloid Leukemia - Russian Academy of Medical Sciences | 11 | 11 | Somatic | 130121,160384 |
Credentials
OpenCGA host URL is available at
http://bioinfo.hpc.cam.ac.uk/opencga-prod/
We have created a read-only user called demouser with password demouser.
You can check Swagger at: http://bioinfo.hpc.cam.ac.uk/opencga-prod/webservices/
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