https://github.com/broadinstitute/dig-aggregator-methods
Monorepo of methods implemented for the Aggregator
Science Score: 36.0%
This score indicates how likely this project is to be science-related based on various indicators:
-
○CITATION.cff file
-
✓codemeta.json file
Found codemeta.json file -
✓.zenodo.json file
Found .zenodo.json file -
○DOI references
-
○Academic publication links
-
✓Committers with academic emails
6 of 12 committers (50.0%) from academic institutions -
○Institutional organization owner
-
○JOSS paper metadata
-
○Scientific vocabulary similarity
Low similarity (6.7%) to scientific vocabulary
Repository
Monorepo of methods implemented for the Aggregator
Basic Info
- Host: GitHub
- Owner: broadinstitute
- License: bsd-3-clause
- Language: Python
- Default Branch: master
- Size: 33.4 MB
Statistics
- Stars: 1
- Watchers: 9
- Forks: 2
- Open Issues: 8
- Releases: 1
Metadata Files
README.md
DIG Aggregator Methods
This is the documentation about aggregator methods.
Quickstart
Every sub-folder in this repo is a completely separate, independent method project for the DIG Aggregator. They can be run from here using one of the run scripts present in the root directory.
```bash
dry run the bottom-line method
$ ./run.sh bottom-line
run a stage of the bioindex method in test mode
$ ./run.sh bioindex --stage GenesStage --test --yes ```
You can also simply go into the sub-directory of the method project and run it yourself.
Creating a New Method
After installing SBT, you can instantiate a new method from a Giter8 template in the root directory:
bash
$ sbt new broadinstitute/dig-aggregator-method.g8
Simply enter the name of the new method and change any of the follow-up defaults as desired.
NOTE: On the Broad file system, SBT can be installed with use SBT.
Data Locations
- phenotype stats
- dataset specific
- variants/{sequence tech}/{dataset}/{phenotype}/
- ancestry specific
- out/metaanalysis/ancestry-specific/{phenotype}/{ancestry}/
- bottom line across all ancestries
- out//metaanalysis/trans-ethnic/{phenotype}/
Owner
- Name: Broad Institute
- Login: broadinstitute
- Kind: organization
- Location: Cambridge, MA
- Website: http://www.broadinstitute.org/
- Twitter: broadinstitute
- Repositories: 1,083
- Profile: https://github.com/broadinstitute
Broad Institute of MIT and Harvard
GitHub Events
Total
- Push event: 253
- Pull request review event: 1
- Pull request event: 35
- Create event: 40
Last Year
- Push event: 253
- Pull request review event: 1
- Pull request event: 35
- Create event: 40
Committers
Last synced: 12 months ago
Top Committers
| Name | Commits | |
|---|---|---|
| psmadbec | p****c@b****g | 208 |
| Jeffrey Massung | m****g@g****m | 135 |
| curoli | c****i@g****m | 78 |
| Marc Duby | m****y@p****u | 28 |
| Marc Duby | m****y@b****g | 19 |
| EC2 Default User | e****r@i****l | 9 |
| Parul-Kudtarkar | p****f@g****m | 8 |
| clint | c****t@b****g | 6 |
| Drew Hite | d****w@d****g | 5 |
| kmoogala | k****a@b****g | 2 |
| root | r****t@i****l | 2 |
| jmassung | j****g@d****g | 1 |
Committer Domains (Top 20 + Academic)
Issues and Pull Requests
Last synced: 11 months ago
All Time
- Total issues: 0
- Total pull requests: 122
- Average time to close issues: N/A
- Average time to close pull requests: 10 days
- Total issue authors: 0
- Total pull request authors: 7
- Average comments per issue: 0
- Average comments per pull request: 0.08
- Merged pull requests: 110
- Bot issues: 0
- Bot pull requests: 0
Past Year
- Issues: 0
- Pull requests: 22
- Average time to close issues: N/A
- Average time to close pull requests: 9 minutes
- Issue authors: 0
- Pull request authors: 2
- Average comments per issue: 0
- Average comments per pull request: 0.0
- Merged pull requests: 15
- Bot issues: 0
- Bot pull requests: 0
Top Authors
Issue Authors
- psmadbec (1)
Pull Request Authors
- psmadbec (160)
- sagehen03 (6)
- marcdubybroad (5)
- Parul-Kudtarkar (5)
- ClintAtTheBroad (3)
- massung (2)
- szandavi (1)
- curoli (1)