diff --git a/_data/contributors.yml b/_data/contributors.yml index 029db402..68c34fc8 100644 --- a/_data/contributors.yml +++ b/_data/contributors.yml @@ -79,6 +79,7 @@ board: true contributor_type: - leadership + - package-guide packages_editor: packages_submitted: packages_reviewed: @@ -102,6 +103,7 @@ website: board: true contributor_type: + - package-guide packages_editor: packages_submitted: packages_reviewed: @@ -206,6 +208,7 @@ board: false contributor_type: - leadership + - package-guide packages_editor: packages_submitted: packages_reviewed: @@ -453,6 +456,7 @@ - peer-review-guide - submitting-author packages_editor: + - biocypher - pynteny packages_submitted: - devicely @@ -722,7 +726,7 @@ twitter: dynamicwebpaige mastodon: orcidid: - website: https://webpaige.dev + website: board: false contributor_type: - contributor @@ -3129,11 +3133,13 @@ - community - maintainer - peer-review + - reviewer - submitting-author packages_editor: packages_submitted: - taxpasta packages_reviewed: + - biocypher location: Copenhagen, Denmark email: midnighter@posteo.net - name: Szabolcs Horvát @@ -3206,6 +3212,7 @@ contributor_type: - guidebook-contrib - peer-review-guide + - web-contrib packages_editor: packages_submitted: packages_reviewed: @@ -4284,3 +4291,174 @@ packages_reviewed: location: email: apatania@uvm.edu +- name: Joseph H Kennedy + github_username: jhkennedy + github_image_id: 7882693 + title: + sort: + bio: I'm a Research Software Engineer, Computational Glaciologist, Climate Scientist, + and Adventurer living/playing in Alaska + organization: Alaska Satellite Facility + date_added: '2023-12-14' + deia_advisory: false + editorial_board: + advisory: false + twitter: + mastodon: + orcidid: + website: https://jhkennedy.org + board: false + contributor_type: + - package-guide + packages_editor: + packages_submitted: + packages_reviewed: + location: Fairbanks, AK + email: +- name: William F. Broderick + github_username: billbrod + github_image_id: 6338509 + title: + sort: + bio: Associate data scientist at Flatiron Institute, working to make computational + neuroscience more open, cumulative, and reproducible. + organization: Flatiron Institute + date_added: '2023-12-14' + deia_advisory: false + editorial_board: + advisory: false + twitter: + mastodon: + orcidid: + website: https://orcid.org/0000-0002-8999-9003 + board: false + contributor_type: + - package-guide + packages_editor: + packages_submitted: + packages_reviewed: + location: New York, NY + email: billbrod@gmail.com +- name: Gregor Sturm + github_username: grst + github_image_id: 7051479 + title: + sort: + bio: Clinical Bioinformatics @Boehringer-Ingelheim.@scverse core dev. Formerly + PhD student @icbi-lab.My private account. + organization: Boehringer Ingelheim + date_added: '2023-12-14' + deia_advisory: false + editorial_board: + advisory: false + twitter: + mastodon: + orcidid: + website: https://grst.github.io + board: false + contributor_type: + - peer-review-guide + packages_editor: + packages_submitted: + packages_reviewed: + location: Biberach, DE + email: mail@gregor-sturm.de +- name: Sean Kelly + github_username: nutjob4life + github_image_id: 814813 + title: + sort: + bio: An agoraphobic gourmand, Python hacker, Plone committer, Apache Software + Foundation member, NASA scientist, gastrophysicist, etc. + organization: Sean Kelly Consulting + date_added: '2023-12-14' + deia_advisory: false + editorial_board: + advisory: false + twitter: nutjob4life + mastodon: + orcidid: + website: https://about.me/sean.c.kelly + board: false + contributor_type: + - peer-review-guide + packages_editor: + packages_submitted: + packages_reviewed: + location: + email: kelly@seankelly.biz +- name: Andrew Nesbitt + github_username: andrew + github_image_id: 1060 + title: + sort: + bio: Software engineer and researcher + organization: '@ecosyste-ms and @octobox' + date_added: '2023-12-14' + deia_advisory: false + editorial_board: + advisory: false + twitter: teabass + mastodon: + orcidid: + website: https://nesbitt.io + board: false + contributor_type: + - web-contrib + packages_editor: + packages_submitted: + packages_reviewed: + location: UK + email: +- name: Lukas Heumos + github_username: Zethson + github_image_id: 21954664 + title: + sort: + bio: PhD student at @theislab and @schillerlab. Co-founder @scverse. Research + software engineer @laminlabs + organization: '@theislab @schillerlab @scverse @laminlabs' + date_added: '2023-12-14' + deia_advisory: false + editorial_board: + advisory: false + twitter: lukasheumos + mastodon: + orcidid: + website: https://lukasheumos.com + board: false + contributor_type: + - peer-review + - reviewer + packages_editor: + packages_submitted: + packages_reviewed: + - biocypher + location: Germany + email: lukas.heumos@posteo.net +- name: Sebastian Lobentanzer + github_username: slobentanzer + github_image_id: 13223629 + title: + sort: + bio: + organization: + date_added: '2023-12-14' + deia_advisory: false + editorial_board: + advisory: false + twitter: slobentanzer + mastodon: + orcidid: + website: + board: false + contributor_type: + - maintainer + - peer-review + - submitting-author + packages_editor: + packages_submitted: + - biocypher + packages_reviewed: + location: + email: diff --git a/_data/packages.yml b/_data/packages.yml index cb3f77fd..2c5d0db4 100644 --- a/_data/packages.yml +++ b/_data/packages.yml @@ -8,7 +8,7 @@ name: Kevin Spiekermann - github_username: himaghna name: - repository_link: https://github.com/jacksonburns/astartes + repository_link: https://github.com/JacksonBurns/astartes version_submitted: v[1.1.2](https://github.com/JacksonBurns/astartes/releases/tag/v1.1.2) categories: - data-processing/munging @@ -21,25 +21,25 @@ reviewer_2: github_username: du-phan name: Du Phan - archive: TBD + archive: '[![DOI](https://zenodo.org/badge/DOI/10.5281/zenodo.8431894.svg)](https://doi.org/10.5281/zenodo.8431894)' version_accepted: v[1.1.3](https://github.com/JacksonBurns/astartes/releases/tag/v1.1.3) date_accepted: '2023-10-15' created_at: '2023-07-10' - updated_at: '2023-10-21' - closed_at: missing + updated_at: '2023-12-13' + closed_at: '2023-11-12' issue_link: https://github.com/pyOpenSci/software-submission/issues/120 joss: gh_meta: name: astartes description: Better Data Splits for Machine Learning created_at: '2022-04-22' - stargazers_count: 23 - watchers_count: 23 - open_issues_count: 13 + stargazers_count: 35 + watchers_count: 35 + open_issues_count: 14 forks_count: 1 documentation: https://jacksonburns.github.io/astartes/ contrib_count: 3 - last_commit: '2023-10-16' + last_commit: '2023-12-07' - package_name: XGI package_description: XGI is a Python package for higher-order networks. submitting_author: @@ -79,8 +79,8 @@ version_accepted: 0.7.4 date_accepted: '2023-09-23' created_at: '2023-06-08' - updated_at: '2023-10-15' - closed_at: missing + updated_at: '2023-12-13' + closed_at: '2023-10-23' issue_link: https://github.com/pyOpenSci/software-submission/issues/115 joss: gh_meta: @@ -88,13 +88,59 @@ description: CompleX Group Interactions (XGI) is a Python package for higher-order networks. created_at: '2021-09-08' - stargazers_count: 138 - watchers_count: 138 - open_issues_count: 57 + stargazers_count: 145 + watchers_count: 145 + open_issues_count: 46 forks_count: 25 documentation: https://xgi.readthedocs.io contrib_count: 12 - last_commit: '2023-10-19' + last_commit: '2023-12-04' +- package_name: biocypher + package_description: framework for creating biomedical knowledge graphs + submitting_author: + github_username: slobentanzer + name: Sebastian Lobentanzer + all_current_maintainers: + - github_username: slobentanzer + name: Sebastian Lobentanzer + repository_link: https://github.com/biocypher/biocypher + version_submitted: 0.5.14 + categories: + - data-retrieval + - data-extraction + - data-processing/munging + - data-deposition + - data-validation and-testing + - workflow-automation + - database-interoperability + editor: + github_username: arianesasso + name: Ariane Sasso + reviewer_1: + github_username: Zethson + name: Lukas Heumos + reviewer_2: + github_username: Midnighter + name: Moritz E. Beber + archive: '[![DOI](https://zenodo.org/badge/DOI/10.5281/zenodo.10158204.svg)](https://doi.org/10.5281/zenodo.10158204)' + version_accepted: v0.5.33 + date_accepted: '2023-11-14' + created_at: '2023-05-04' + updated_at: '2023-12-14' + closed_at: '2023-11-28' + issue_link: https://github.com/pyOpenSci/software-submission/issues/110 + joss: + gh_meta: + name: biocypher + description: A unifying framework for biomedical research knowledge graphs + created_at: '2021-09-10' + stargazers_count: 157 + watchers_count: 157 + open_issues_count: 142 + forks_count: 18 + documentation: https://biocypher.org + contrib_count: 10 + last_commit: '2023-12-09' - package_name: cardsort package_description: A python package to analyse data from open card sorting tasks submitting_author: @@ -122,7 +168,7 @@ version_accepted: v [0.2.36](https://github.com/katoss/cardsort/releases/tag/v0.2.36) date_accepted: '2023-08-16' created_at: '2023-04-20' - updated_at: '2023-10-08' + updated_at: '2023-12-13' closed_at: '2023-08-23' issue_link: https://github.com/pyOpenSci/software-submission/issues/102 joss: @@ -131,13 +177,13 @@ description: A python package to analyse cardsorting data from kardsort.com outputs. created_at: '2023-03-16' - stargazers_count: 4 - watchers_count: 4 + stargazers_count: 7 + watchers_count: 7 open_issues_count: 0 forks_count: 1 documentation: https://cardsort.readthedocs.io contrib_count: 4 - last_commit: '2023-09-13' + last_commit: '2023-11-28' - package_name: afscgap package_description: Community contributed Python-based tools for working with public bottom trawl surveys data from the NOAA Alaska Fisheries Science Center @@ -177,13 +223,13 @@ name: afscgap description: Python-based tools for NOAA AFSC GAP marine species surveys data created_at: '2023-02-18' - stargazers_count: 4 - watchers_count: 4 - open_issues_count: 3 + stargazers_count: 5 + watchers_count: 5 + open_issues_count: 1 forks_count: 4 documentation: https://pyafscgap.org contrib_count: 2 - last_commit: '2023-06-28' + last_commit: '2023-12-08' - package_name: taxpasta package_description: TAXonomic Profile Aggregation and STAndardisation submitting_author: @@ -213,7 +259,7 @@ version_accepted: 0.4.0 date_accepted: '2023-07-05' created_at: '2023-03-02' - updated_at: '2023-08-29' + updated_at: '2023-12-13' closed_at: '2023-07-12' issue_link: https://github.com/pyOpenSci/software-submission/issues/84 joss: @@ -221,9 +267,9 @@ name: taxpasta description: TAXnomic Profile Aggregation and STAndardisation created_at: '2022-06-03' - stargazers_count: 23 - watchers_count: 23 - open_issues_count: 10 + stargazers_count: 24 + watchers_count: 24 + open_issues_count: 11 forks_count: 6 documentation: https://taxpasta.readthedocs.io/ contrib_count: 5 @@ -254,8 +300,8 @@ version_accepted: 0.1.10 date_accepted: 2023-7-5 created_at: '2023-03-01' - updated_at: '2023-08-10' - closed_at: missing + updated_at: '2023-12-13' + closed_at: '2023-12-13' issue_link: https://github.com/pyOpenSci/software-submission/issues/83 joss: gh_meta: @@ -299,7 +345,7 @@ version_accepted: 2023.7.0 date_accepted: '2023-07-14' created_at: '2023-02-04' - updated_at: '2023-08-29' + updated_at: '2023-12-13' closed_at: '2023-07-27' issue_link: https://github.com/pyOpenSci/software-submission/issues/81 joss: @@ -308,13 +354,13 @@ description: 'Python library for GraphBLAS: high-performance sparse linear algebra for scalable graph analytics' created_at: '2019-11-11' - stargazers_count: 86 - watchers_count: 86 - open_issues_count: 53 + stargazers_count: 92 + watchers_count: 92 + open_issues_count: 51 forks_count: 15 documentation: https://python-graphblas.readthedocs.io/en/stable/ contrib_count: 10 - last_commit: '2023-10-22' + last_commit: '2023-12-13' - package_name: xclim package_description: Climate indices computation package based on Xarray submitting_author: @@ -355,13 +401,13 @@ description: 'Library of derived climate variables, ie climate indicators, based on xarray. ' created_at: '2018-07-27' - stargazers_count: 260 - watchers_count: 260 - open_issues_count: 54 + stargazers_count: 275 + watchers_count: 275 + open_issues_count: 59 forks_count: 44 documentation: https://xclim.readthedocs.io/en/stable/ contrib_count: 27 - last_commit: '2023-10-18' + last_commit: '2023-12-14' - package_name: crowsetta package_description: A Python tool to work with any format for annotating animal vocalizations and bioacoustics data. @@ -398,8 +444,8 @@ name: crowsetta description: A tool to work with any format for annotating vocalizations created_at: '2018-12-01' - stargazers_count: 37 - watchers_count: 37 + stargazers_count: 39 + watchers_count: 39 open_issues_count: 34 forks_count: 3 documentation: https://crowsetta.readthedocs.io/en/latest/ @@ -444,11 +490,11 @@ created_at: '2022-06-06' stargazers_count: 13 watchers_count: 13 - open_issues_count: 3 + open_issues_count: 1 forks_count: 1 documentation: https://robaina.github.io/Pynteny contrib_count: 2 - last_commit: '2023-09-10' + last_commit: '2023-11-03' - package_name: Jointly package_description: Jointly is a python package for synchronizing sensors with accelerometer data @@ -538,13 +584,13 @@ name: pygmt description: A Python interface for the Generic Mapping Tools. created_at: '2017-03-17' - stargazers_count: 656 - watchers_count: 656 - open_issues_count: 164 - forks_count: 200 + stargazers_count: 680 + watchers_count: 680 + open_issues_count: 180 + forks_count: 206 documentation: https://www.pygmt.org contrib_count: 30 - last_commit: '2023-10-20' + last_commit: '2023-12-14' - package_name: Devicely package_description: A Python package for reading, timeshifting and writing sensor data @@ -616,7 +662,7 @@ version_accepted: v [0.8.8](https://github.com/JonnyTran/OpenOmics/releases/tag/v0.8.8) date_accepted: '2021-04-17' created_at: '2021-01-01' - updated_at: '2023-09-09' + updated_at: '2023-11-09' closed_at: '2021-05-10' issue_link: https://github.com/pyOpenSci/software-submission/issues/31 joss: @@ -625,9 +671,9 @@ description: A bioinformatics API to interface with public multi-omics bio databases for wicked fast data integration. created_at: '2018-03-16' - stargazers_count: 23 - watchers_count: 23 - open_issues_count: 4 + stargazers_count: 24 + watchers_count: 24 + open_issues_count: 7 forks_count: 13 documentation: https://openomics.readthedocs.io/en/latest/ contrib_count: 9 @@ -701,7 +747,7 @@ version_accepted: v [0.6.0](https://github.com/pystiche/pystiche/releases/tag/v0.6.0) date_accepted: '2020-10-08' created_at: '2020-07-02' - updated_at: '2023-09-09' + updated_at: '2023-11-08' closed_at: '2020-10-14' issue_link: https://github.com/pyOpenSci/software-submission/issues/25 joss: @@ -712,7 +758,7 @@ stargazers_count: 265 watchers_count: 265 open_issues_count: 15 - forks_count: 30 + forks_count: 29 documentation: contrib_count: 10 last_commit: '2022-03-18' @@ -750,13 +796,13 @@ name: phenopype description: A phenotyping pipeline for Python created_at: '2022-01-04' - stargazers_count: 8 - watchers_count: 8 + stargazers_count: 9 + watchers_count: 9 open_issues_count: 3 forks_count: 4 documentation: https://www.phenopype.org contrib_count: 1 - last_commit: '2023-06-16' + last_commit: '2023-11-20' - package_name: pyrolite package_description: A set of tools for getting the most from your geochemical data. @@ -794,9 +840,9 @@ name: pyrolite description: A set of tools for getting the most from your geochemical data. created_at: '2018-06-13' - stargazers_count: 112 - watchers_count: 112 - open_issues_count: 13 + stargazers_count: 115 + watchers_count: 115 + open_issues_count: 12 forks_count: 30 documentation: https://pyrolite.readthedocs.io contrib_count: 11 @@ -835,13 +881,13 @@ name: movingpandas description: Movement trajectory classes and functions built on top of GeoPandas created_at: '2018-12-16' - stargazers_count: 1049 - watchers_count: 1049 - open_issues_count: 44 - forks_count: 183 + stargazers_count: 1064 + watchers_count: 1064 + open_issues_count: 40 + forks_count: 185 documentation: https://movingpandas.org contrib_count: 30 - last_commit: '2023-10-21' + last_commit: '2023-11-03' - package_name: pandera package_description: validate the types, properties, and statistics of pandas data structures @@ -878,13 +924,13 @@ description: A light-weight, flexible, and expressive statistical data testing library created_at: '2018-11-01' - stargazers_count: 2634 - watchers_count: 2634 - open_issues_count: 284 - forks_count: 220 + stargazers_count: 2722 + watchers_count: 2722 + open_issues_count: 300 + forks_count: 233 documentation: https://www.union.ai/pandera contrib_count: 30 - last_commit: '2023-10-20' + last_commit: '2023-12-06' - package_name: Nbless package_description: Construct, deconstruct, convert, execute, & prepare slides from Jupyter notebooks @@ -971,9 +1017,9 @@ description: A package built to support working with spatial data using open source python created_at: '2018-02-20' - stargazers_count: 465 - watchers_count: 465 - open_issues_count: 35 + stargazers_count: 469 + watchers_count: 469 + open_issues_count: 38 forks_count: 159 documentation: https://earthpy.readthedocs.io contrib_count: 30