https://github.com/dereneaton/ipyrad
Interactive assembly and analysis of RAD-seq data sets
https://github.com/dereneaton/ipyrad
Keywords
assembly genomics phylogeny rad-seq
Keywords from Contributors
bioinformatics conda package-management parallel observational serialize charts
Last synced: 11 months ago
JSON representation
Acceptance Criteria
- Revelant topics? true
- External users? true
- Open source license? true
- Active? true
- Fork? false
Repository metadata
Interactive assembly and analysis of RAD-seq data sets
- Host: GitHub
- URL: https://github.com/dereneaton/ipyrad
- Owner: dereneaton
- License: gpl-3.0
- Created: 2015-10-07T16:50:52.000Z (over 9 years ago)
- Default Branch: master
- Last Pushed: 2024-04-29T20:30:43.000Z (about 1 year ago)
- Last Synced: 2024-05-31T00:03:52.783Z (11 months ago)
- Topics: assembly, genomics, phylogeny, rad-seq
- Language: Jupyter Notebook
- Homepage: http://ipyrad.readthedocs.io
- Size: 98.2 MB
- Stars: 70
- Watchers: 7
- Forks: 39
- Open Issues: 52
- Releases: 0
-
Metadata Files:
- Readme: README.rst
- License: LICENSE.txt
- Support: docs/support.rst
Owner metadata
- Name: Deren Eaton
- Login: dereneaton
- Email:
- Kind: user
- Description: Botany | Genomics | Admixture | Phylogeny
- Website: https://www.eaton-lab.org
- Location: NYC
- Twitter:
- Company: Columbia University
- Icon url: https://avatars.githubusercontent.com/u/5395480?u=7b54418e2b18010ca00b0e8509f2540a0aa21749&v=4
- Repositories: 24
- Last ynced at: 2023-08-19T08:21:27.642Z
- Profile URL: https://github.com/dereneaton
Committers metadata
Last synced: over 1 year ago
Total Commits: 3,925
Total Committers: 28
Avg Commits per committer: 140.179
Development Distribution Score (DDS): 0.683
Commits in past year: 32
Committers in past year: 1
Avg Commits per committer in past year: 32.0
Development Distribution Score (DDS) in past year: 0.0
| Name | Commits | |
|---|---|---|
| dereneaton | d****n@y****u | 1243 |
| Isaac Overcast | i****t@g****m | 1038 |
| deren | d****o@g****m | 1025 |
| eaton-lab | d****6@c****u | 475 |
| isaacovercast | l****r@T****l | 52 |
| Isaac | i****t@n****r | 16 |
| Francisco Pina Martins | f****s@g****m | 16 |
| isaac | i****c@Y****l | 15 |
| Isaac | i****t@n****r | 9 |
| Fishlab | f****b@F****l | 7 |
| Carlos Alonso Maya Lastra | c****l | 4 |
| Isaac | i****t@Y****l | 4 |
| Isaac | i****t@n****r | 4 |
| Tankred Ott | T****t@h****e | 2 |
| Oliver Stueker | o****r | 2 |
| Anonymous | a****s@o****m | 1 |
| Deren Eaton | d****n@s****u | 1 |
| Edgardo M. Ortiz | e****v@g****m | 1 |
| Isaac | i****t@n****r | 1 |
| Isaac Overcast | i****t@p****u | 1 |
| Maia Hernandez | m****z@d****u | 1 |
| Maia Hernandez | m****z@d****u | 1 |
| Mike Renfro | m****b@r****o | 1 |
| deren eaton | d****6@s****r | 1 |
| deren eaton | d****6@t****r | 1 |
| deren eaton | d****6@t****r | 1 |
| The Gitter Badger | b****r@g****m | 1 |
| deren eaton | d****6@t****r | 1 |
Committer domains:
- t110.cm.cluster: 1
- gitter.im: 1
- t107.cm.cluster: 1
- t103.cm.cluster: 1
- shake.cm.cluster: 1
- renf.ro: 1
- dyn-209-2-208-78.dyn.columbia.edu: 1
- dyn-209-2-208-172.dyn.columbia.edu: 1
- penzias.csi.cuny.edu: 1
- node002.cm.cluster: 1
- sacra.columbia.edu: 1
- overleaf.com: 1
- hotmail.de: 1
- node003.cm.cluster: 1
- fishlabs-mini.wireless.yale.internal: 1
- node004.cm.cluster: 1
- node001.cm.cluster: 1
- columbia.edu: 1
- yale.edu: 1
Issue and Pull Request metadata
Last synced: 11 months ago
Total issues: 149
Total pull requests: 7
Average time to close issues: 5 months
Average time to close pull requests: 1 day
Total issue authors: 78
Total pull request authors: 4
Average comments per issue: 4.46
Average comments per pull request: 1.0
Merged pull request: 4
Bot issues: 0
Bot pull requests: 0
Past year issues: 48
Past year pull requests: 1
Past year average time to close issues: 10 days
Past year average time to close pull requests: 11 minutes
Past year issue authors: 31
Past year pull request authors: 1
Past year average comments per issue: 3.08
Past year average comments per pull request: 3.0
Past year merged pull request: 0
Past year bot issues: 0
Past year bot pull requests: 0
Top Issue Authors
- isaacovercast (35)
- alexkrohn (10)
- AliBasuony2022 (4)
- zilaijuand (4)
- jljy47 (4)
- tsm-tsm (4)
- jesus-mavarez (3)
- c-mccarron (3)
- mydjc (3)
- carlahurt (3)
- Phismil (2)
- Pgjhmb (2)
- imaa9 (2)
- TomaszSuchan (2)
- Uniltiranyu (2)
Top Pull Request Authors
- camayal (2)
- TankredO (2)
- mikerenfro (2)
- stephamor (1)
Top Issue Labels
- enhancement (3)
Top Pull Request Labels
Package metadata
- Total packages: 2
- Total downloads: unknown
- Total dependent packages: 0 (may contain duplicates)
- Total dependent repositories: 2 (may contain duplicates)
- Total versions: 10
- Total maintainers: 1
pypi.org: ipyrad
Interactive assembly and analysis of RADseq data sets
- Homepage: https://github.com/dereneaton/ipyrad
- Status: removed
- Documentation: https://ipyrad.readthedocs.io/
- Licenses: GPL
- Latest release: 0.1.32 (published over 9 years ago)
- Last Synced: 2024-05-31T00:07:55.287Z (11 months ago)
- Versions: 5
- Dependent Packages: 0
- Dependent Repositories: 2
- Downloads: 0
- Docker Downloads: 0
-
Rankings:
- Dependent packages count: 5.866%
- Forks count: 5.963%
- Dependent repos count: 7.854%
- Stargazers count: 8.163%
- Average: 13.585%
- Downloads: 40.081%
spack.io: py-ipyrad
An interactive toolkit for assembly and analysis of restriction-site associated genomic data sets (e.g., RAD, ddRAD, GBS) for population genetic and phylogenetic studies.
- Homepage: https://github.com/dereneaton/ipyrad
- Licenses: []
- Latest release: 0.9.93 (published about 1 year ago)
- Last Synced: 2024-05-31T00:00:25.560Z (11 months ago)
- Versions: 5
- Dependent Packages: 0
- Dependent Repositories: 0
-
Rankings:
- Dependent repos count: 0.0%
- Forks count: 16.724%
- Stargazers count: 20.747%
- Average: 23.659%
- Dependent packages count: 57.164%
- Maintainers (1)
Dependencies
- bcftools
- bpp
- bucky
- clumpp
- htslib
- ipcoal
- ipyrad
- mrbayes
- raxml
- scikit-learn
- structure
- tetrad
- toytree
- treemix
- ipykernel *
- nbsphinx *
- sphinx >=1.4
- sphinx_rtd_theme *
- ipykernel *
- jinja2 <3.0.0
- nbsphinx *
- sphinx >=1.4
- sphinx_rtd_theme *
- cutadapt *
- future *
- h5py *
- ipyparallel *
- numba *
- numpy *
- pandas *
- pysam *
- requests *
- scipy *
Score: 9.234837843576571