Comments (3)
Hi Akhil,
Yes, there is an implementation for all STAARpipeline-related apps in the Google Cloud platform (see here). If you have any questions, please feel free to reach out.
Thanks,
Xihao
from staarpipeline.
have this been implemented in all of us workbench? I see seven bridges there. I will see if I can try the same in all of us platform.
from staarpipeline.
@akhilpampana, Hello,
I have implemented STAARpipeline in the all of us platform. All of Us allows two types of jobs interactive and batch submitted. In interactive jobs, STAARpipeline will need to be installed inside the job "install.packages()" and if you keep your persistent disk then your interactive job will always have access to the staar-pipeline. In batch submitted jobs, you can either use a publicly available docker that has STAARpipeline installed or at the start of each submitted job, install the package in a similar manner. To implement STAARpipeline once installed, I followed the scripts in the STAARpipeline Tutorial (https://github.com/xihaoli/STAARpipeline-Tutorial). There is no command line tool in All of Us, just R Scripts in either interactive or batch submitted jobs.
from staarpipeline.
Related Issues (19)
- SCANG error in class(genotype)=="dgCMatrix" Rversion 4.2.0 HOT 1
- Null output in Dynamic window analysis HOT 4
- preinstall packages HOT 1
- Account for population frequency HOT 1
- Are there provide a toy data? HOT 2
- How do other species generate the variants list to be annotated? HOT 1
- Results are not consistent with what we got before HOT 1
- Running docker image HOT 3
- Gene_Centic_Coding Unable to Analyze Gene HOT 10
- STAARPipeline for imbalanced binary phenotypes HOT 2
- Integration of annotations HOT 3
- Minimum number of samples? HOT 1
- Feature request: add to Biocontainers HOT 5
- Provide test data
- Forced relatedness in null model despite NULL kins HOT 2
- Burden effects for all genes of a category HOT 1
- Does this pipeline support sex chromosomes? HOT 8
- What are the differences between the individual part of the STAARpipeline and the traditional GWAS using the plink method? HOT 3
Recommend Projects
-
React
A declarative, efficient, and flexible JavaScript library for building user interfaces.
-
Vue.js
🖖 Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.
-
Typescript
TypeScript is a superset of JavaScript that compiles to clean JavaScript output.
-
TensorFlow
An Open Source Machine Learning Framework for Everyone
-
Django
The Web framework for perfectionists with deadlines.
-
Laravel
A PHP framework for web artisans
-
D3
Bring data to life with SVG, Canvas and HTML. 📊📈🎉
-
Recommend Topics
-
javascript
JavaScript (JS) is a lightweight interpreted programming language with first-class functions.
-
web
Some thing interesting about web. New door for the world.
-
server
A server is a program made to process requests and deliver data to clients.
-
Machine learning
Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.
-
Visualization
Some thing interesting about visualization, use data art
-
Game
Some thing interesting about game, make everyone happy.
Recommend Org
-
Facebook
We are working to build community through open source technology. NB: members must have two-factor auth.
-
Microsoft
Open source projects and samples from Microsoft.
-
Google
Google ❤️ Open Source for everyone.
-
Alibaba
Alibaba Open Source for everyone
-
D3
Data-Driven Documents codes.
-
Tencent
China tencent open source team.
from staarpipeline.