JOSS: https://github.com/sourmash-bio/sourmash
bioinformatics fracminhash hacktoberfest kmer minhash python rust scaled-minhash sketching sourmash taxonomic-classification taxonomic-profiling
Score: 21.992181809529228
Last synced: about 4 hours ago
JSON representation
Repository metadata:
Quickly search, compare, and analyze genomic and metagenomic data sets.
- Host: GitHub
- URL: https://github.com/sourmash-bio/sourmash
- Owner: sourmash-bio
- License: other
- Created: 2016-04-09T17:35:30.000Z (almost 10 years ago)
- Default Branch: latest
- Last Pushed: 2025-10-28T17:43:09.000Z (3 months ago)
- Last Synced: 2025-10-29T04:43:47.427Z (3 months ago)
- Topics: bioinformatics, fracminhash, hacktoberfest, kmer, minhash, python, rust, scaled-minhash, sketching, sourmash, taxonomic-classification, taxonomic-profiling
- Language: Python
- Homepage: http://sourmash.readthedocs.io/en/latest/
- Size: 47.3 MB
- Stars: 525
- Watchers: 16
- Forks: 88
- Open Issues: 818
-
Metadata Files:
- Readme: README.md
- Contributing: CONTRIBUTING.md
- License: LICENSE
- Code of conduct: CODE_OF_CONDUCT.rst
- Citation: CITATION.cff
- Codemeta: codemeta.json
- Zenodo: .zenodo.json
CodeMeta metadata:
- @context: https://raw.githubusercontent.com/mbjones/codemeta/master/codemeta.jsonld
- @type: Code
- Author:
- Identifier:
- Code repository: https://github.com/sourmash-bio/sourmash
- Date published: 2016-06-07
- Date modified: 2016-06-07
- Date created: 2016-06-07
- Description: Generate, compare, and manipulate MinHash sketches of genomic data
- Keywords: MinHash, k-mers, Python
- License: BSD 3-clause
- Title: sourmash
- Version: v1.0.0
Owner metadata:
- Name: sourmash, for large-scale biological sequence search!
- Login: sourmash-bio
- Email:
- Kind: organization
- Description: Quickly search, compare, and analyze genomic and metagenomic data sets.
- Website: https://sourmash.bio
- Location:
- Twitter:
- Company:
- Icon url: https://avatars.githubusercontent.com/u/59402508?v=4
- Repositories: 20
- Last Synced at: 2023-03-03T23:19:54.194Z
- Profile URL: https://github.com/sourmash-bio
GitHub Events
Total
- Commit comment event: 1
- Create event: 246
- Delete event: 214
- Fork event: 8
- Issue comment event: 674
- Issues event: 218
- Pull request event: 462
- Pull request review comment event: 44
- Pull request review event: 172
- Push event: 799
- Release event: 11
- Watch event: 41
- Total: 2890
Last Year
- Commit comment event: 1
- Create event: 235
- Delete event: 204
- Fork event: 8
- Issue comment event: 647
- Issues event: 211
- Pull request event: 440
- Pull request review comment event: 43
- Pull request review event: 164
- Push event: 773
- Release event: 11
- Watch event: 40
- Total: 2777
Committers metadata
Last synced: 3 months ago
Total Commits: 2,138
Total Committers: 47
Avg Commits per committer: 45.489
Development Distribution Score (DDS): 0.491
Commits in past year: 251
Committers in past year: 8
Avg Commits per committer in past year: 31.375
Development Distribution Score (DDS) in past year: 0.558
| Name | Commits | |
|---|---|---|
| C. Titus Brown | t****s@i****g | 1089 |
| dependabot[bot] | 4****] | 469 |
| Luiz Irber | l****r | 278 |
| Tessa Pierce Ward | b****s | 83 |
| pre-commit-ci[bot] | 6****] | 63 |
| Laurent Gautier | l****r@g****m | 28 |
| Keya Barve | 5****e | 22 |
| Tim Head | b****m@g****m | 12 |
| Mohamed Abuelanin | m****n@g****m | 10 |
| Olga Botvinnik | o****k@g****m | 8 |
| Taylor Reiter | t****r@g****m | 7 |
| Erik Young | 6****5 | 7 |
| Pranathi Vemuri | p****i@g****m | 5 |
| dependabot-preview[bot] | 2****] | 4 |
| brooksph | p****s@g****m | 4 |
| S. Joshua Swamidass | s****s@g****m | 3 |
| ccbaumler | 6****r | 3 |
| Michael R. Crusoe | 1****c | 3 |
| Hannah Eve Houts | 4****s | 3 |
| Connor Tiffany | c****y@u****u | 2 |
| David Koslicki | d****i@g****m | 2 |
| Camille Scott | c****w@g****m | 2 |
| Connor Tiffany | c****u | 2 |
| Harriet Alexander | h****r@g****m | 2 |
| Luca Cappelletti | c****4@g****m | 2 |
| Peter Cock | p****k@g****m | 2 |
| Daniel Standage | d****e@g****m | 2 |
| Jason Stajich | j****h@u****u | 2 |
| pyup.io bot | g****t@p****o | 1 |
| ljcohen | l****n@u****u | 1 |
| and 17 more... | ||
Issue and Pull Request metadata
Last synced: 3 months ago
Total issues: 607
Total pull requests: 1,257
Average time to close issues: 10 months
Average time to close pull requests: 16 days
Total issue authors: 84
Total pull request authors: 20
Average comments per issue: 1.99
Average comments per pull request: 1.88
Merged pull request: 997
Bot issues: 3
Bot pull requests: 721
Past year issues: 163
Past year pull requests: 470
Past year average time to close issues: 26 days
Past year average time to close pull requests: 3 days
Past year issue authors: 30
Past year pull request authors: 9
Past year average comments per issue: 0.58
Past year average comments per pull request: 1.58
Past year merged pull request: 350
Past year bot issues: 1
Past year bot pull requests: 282
Top Issue Authors
- ctb (392)
- bluegenes (42)
- mr-eyes (16)
- luizirber (14)
- ccbaumler (13)
- taylorreiter (8)
- jessicalumian (7)
- AnneliektH (6)
- yuzie0314 (5)
- Amanda-Biocortex (5)
- jorondo1 (4)
- jodyphelan (4)
- phiweger (3)
- agombolay (3)
- chunyuma (3)
Top Pull Request Authors
- dependabot[bot] (627)
- ctb (315)
- luizirber (108)
- pre-commit-ci[bot] (94)
- bluegenes (77)
- mr-c (6)
- LucaCappelletti94 (6)
- olgabot (5)
- ccbaumler (3)
- Glfrey (2)
- magikcarp (2)
- fossabot (2)
- cmatKhan (2)
- mr-eyes (2)
- peterjc (1)
Top Issue Labels
- 5.0 (41)
- doc (39)
- rust (22)
- plugin_todo (22)
- code (13)
- faq (11)
- fyi (10)
- enhancement (9)
- taxonomy (7)
- plugin (6)
- sbt (5)
- tutorial (4)
- good first issue (4)
- speeding-up-gather (4)
- md5sum (4)
- question (4)
- dependencies (3)
- revisit_me (3)
- example (3)
- databases (2)
- use-case (2)
- python (2)
- idea (2)
- developer_infrastructure (1)
- paper (1)
- videos (1)
- slides (1)
- talks (1)
- R (1)
- help wanted (1)
Top Pull Request Labels
- dependencies (626)
- rust (459)
- github_actions (145)
- python (40)
- doc (1)
- plugin (1)
- msrv (1)
Package metadata
- Total packages: 4
-
Total downloads:
- pypi: 8,931 last-month
- npm: 421 last-month
- cargo: 46,952 total
- Total dependent packages: 17 (may contain duplicates)
- Total dependent repositories: 26 (may contain duplicates)
- Total versions: 158
- Total maintainers: 5
pypi.org: sourmash
tools for comparing biological sequences with k-mer sketches
- Homepage: https://sourmash.bio/
- Documentation: https://sourmash.readthedocs.io
- Licenses: other
- Latest release: 4.9.4 (published 6 months ago)
- Last Synced: 2025-10-30T05:12:21.553Z (3 months ago)
- Versions: 82
- Dependent Packages: 15
- Dependent Repositories: 21
- Downloads: 8,931 Last month
- Docker Downloads: 0
-
Rankings:
- Dependent packages count: 0.902%
- Docker downloads count: 1.237%
- Dependent repos count: 3.163%
- Stargazers count: 3.246%
- Average: 3.46%
- Forks count: 5.049%
- Downloads: 7.162%
- Maintainers (3)
npmjs.org: sourmash
tools for comparing biological sequences with k-mer sketches
- Homepage: https://github.com/sourmash-bio/sourmash#readme
- Licenses: BSD-3-Clause
- Latest release: 0.19.0 (published 12 months ago)
- Last Synced: 2025-10-30T05:12:24.654Z (3 months ago)
- Versions: 29
- Dependent Packages: 1
- Dependent Repositories: 2
- Downloads: 421 Last month
-
Rankings:
- Stargazers count: 3.224%
- Forks count: 3.361%
- Downloads: 5.506%
- Dependent repos count: 7.638%
- Average: 8.139%
- Dependent packages count: 20.968%
- Maintainers (1)
crates.io: sourmash
tools for comparing biological sequences with k-mer sketches
- Homepage:
- Documentation: https://docs.rs/sourmash/
- Licenses: BSD-3-Clause
- Latest release: 0.21.0 (published 7 months ago)
- Last Synced: 2025-10-30T05:12:21.551Z (3 months ago)
- Versions: 27
- Dependent Packages: 1
- Dependent Repositories: 2
- Downloads: 46,952 Total
-
Rankings:
- Forks count: 7.543%
- Stargazers count: 8.528%
- Average: 13.074%
- Dependent repos count: 13.204%
- Downloads: 17.91%
- Dependent packages count: 18.187%
- Maintainers (2)
conda-forge.org: sourmash-minimal
This is a minimal version that avoids heavy dependencies and is as cross-platform as possible. For the complete version check the sourmash package in bioconda.
- Homepage: https://github.com/sourmash-bio/sourmash
- Licenses: BSD-3-Clause
- Latest release: 4.5.0 (published over 3 years ago)
- Last Synced: 2025-10-30T05:12:30.608Z (3 months ago)
- Versions: 20
- Dependent Packages: 0
- Dependent Repositories: 1
-
Rankings:
- Stargazers count: 20.829%
- Forks count: 22.541%
- Dependent repos count: 24.377%
- Average: 29.834%
- Dependent packages count: 51.589%
Dependencies
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- actions/checkout v3 composite
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- pypa/cibuildwheel v2.12.0 composite
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- docker/setup-qemu-action v2 composite
- fnkr/github-action-ghr v1 composite
- pierotofy/set-swap-space v1.0 composite
- pypa/cibuildwheel v2.12.0 composite
- actions/cache v3 composite
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- cachix/install-nix-action v18 composite
- conda-incubator/setup-miniconda 3b0f2504dd76ef23b6d31f291f4913fb60ab5ff3 composite
- actions/checkout v3 composite
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- actions/checkout v3 composite
- actions/cache v3 composite
- actions/checkout v3 composite
- actions/setup-python v4 composite
- ibnesayeed/setup-ipfs master composite
- r-lib/actions/setup-pandoc v2 composite
- supercharge/redis-github-action 4b67a313c69bc7a90f162e8d810392fffe10d3b5 composite
- actions-rs/cargo v1 composite
- actions-rs/install v0.1 composite
- actions-rs/toolchain v1 composite
- actions/checkout v3 composite
- actions/setup-node v3 composite
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- codecov/codecov-action v3 composite
- actions-rs/cargo v1 composite
- actions-rs/toolchain v1 composite
- actions/checkout v3 composite
- actions/setup-node v3 composite
- 163 dependencies
- assert_matches 1.3.0 development
- criterion 0.3.2 development
- getrandom 0.2 development
- needletail 0.4.1 development
- proptest 1.0.0 development
- rand 0.8.2 development
- tempfile 3.1.0 development
- az 1.0.0
- bytecount 0.6.0
- byteorder 1.4.3
- cfg-if 1.0
- counter 0.5.7
- finch 0.5.0
- fixedbitset 0.4.0
- getset 0.1.1
- log 0.4.8
- md5 0.7.0
- memmap2 0.5.8
- murmurhash3 0.0.5
- niffler 2.3.1
- nohash-hasher 0.2.0
- num-iter 0.1.43
- once_cell 1.17.0
- ouroboros 0.15.0
- piz 0.4.0
- primal-check 0.3.1
- rayon 1.6.1
- serde 1.0.152
- serde_json 1.0.91
- thiserror 1.0
- twox-hash 1.6.0
- typed-builder 0.11.0
- vec-collections 0.3.4
- matplotlib_venn *
- mmh3 *