Organization name and setup time
Organization Name: openbiox
Organization establishment time: March 2019
Inventing, Optimizing, Sharing
- Popularize the spirit of open source science
- Create a student letter open source community
- Cultivate outstanding talents
- Incubation and Health Innovation Project
Organizational Structure and Features
Following the flat management idea, it consists of the Standing Committee, the Project Action Team, and the sponsor. Organization members have no hierarchical relationship during the project, and all actions that are harmful to openbiox development or split openbiox are eliminated.
Standing Committee: At the beginning of March each year, all members voted for 14-18 persons. Each member of the Standing Committee shall assume clear management responsibilities for a term of one year and implement a rotation system for every two Two of them are responsible for the main things in openbiox during the week. In addition, 6 people are required to be the standing committee rotation staff (quality project proponents, active contributors, helpful people, etc.) as the openbiox management talent echelon construction project. Candidates for the general election of the Standing Committee shall be nominated by members of the Standing Committee and approved by more than half of the members of the Standing Committee. In general, candidates for the Standing Committee should have at least 4-5 conditions below (if they are other special talents, they can also be nominated):
- High recognition and a strong passion for openbiox
- Strong learning, independent thinking, and innovation
- Strong teamwork, project management, and organizational coordination
- Have a certain appeal and influence in the bioinformatics community
- Application experience of the National Natural Science Foundation and other research projects
- Have Chinese core or SCI article writing and publishing experience
- Have initiated/contributed open source project experience
- Expertise in some of the much-needed bioinformatics research/application directions
The main duties of the Standing Committee are:
- Organize team building activities
- Promote team project results
- Management team funds revenue and expenditure
- Organizing project creative discussions
- Allocate the resources required for the project
- Supervise project execution progress
- Assess project completion
- Monitoring academic misconduct
Project Action Team: Voluntary choice of members to join, provide openbiox bioinformatics project ideas and carry out the actual development, testing, release, operation, and maintenance of the project. The practice group is composed according to the number of project creativity, member interests, and skills. In principle, each practice group contains at least one standing committee member and one technical instructor.
Sponsor: An individual or institution inside or outside openbiox. All grants should be registered regardless of the amount of money, and all members should be grateful and cherished, and provide certain privileges (such as priority use of resources, the priority of introductory rights, provision of open source project homepages or advertisements for documents, etc.).
Recruitment and exit
- Online promotion at the end of February and early March each year, recruiting openbiox members with high self-drive by submitting resumes and email applications. The new application must be approved by half of the members of the Standing Committee to join openbiox. After the completion of the centralized management, the Standing Committee election will be held and the next year's work plan and process will be entered.
- During the term of the members of the Standing Committee, new members may be recommended by any member of the Standing Committee, and the relevant recommenders shall be approved by half of the members of the Standing Committee. Members of the Standing Committee, each with a recommended number of five people per year.
- Co-applied by the Principal of Practice and its member of the Standing Committee, mainly for recruitment: the project carries out urgently needed relevant professionals; actively participate in open source practice projects and strongly hopes to join openbiox. The relevant application requires half of the members of the Standing Committee to agree to pass.
In order to guarantee the start-up expenses of some projects and increase the enthusiasm of the project of openbiox members, we plan to collect all project members' construction funds (not more than 100 yuan) after the annual regular new ones, special circumstances (such as providing other means of equal funding) And important contributions to openbiox construction and practice projects) should be exempted and returned. Other openbiox members who join the unconventional time are also required to pay, and the special circumstances can be waived as well.
Members who want to voluntarily withdraw from openbiox need to apply to the Standing Committee and indicate the detailed reasons. They also need to hand over the project they are responsible for/participate and give up all the rights that the project may bring (special circumstances are supported by the Standing Committee and Practice group members discuss the decision).
openbiox welcomes all friends who are passionate, responsible, knowledgeable, capable and self-motivated. For members who do not care, do not respond, or participate in openbiox discussions, exchanges, practices, etc., we will persuade them to withdraw (solicit their final opinion and vote of all members of the Standing Committee). If a member does not respond and contribute to all of openbiox's activities and practice projects for 2 consecutive months, it will by default be considered an unsolicited exit from the openbiox committee.
All internal shared project ideas (not fully public) proposed by openbiox members, all members must not be open to non-openbiox personnel. If members need to independently conduct relevant research or development activities based on creative projects proposed by other openbiox members (such as further expansion and transformation of the project's creative content), they should communicate with the project creative proposer and the standing committee members in advance, and need to follow up the research. The source of the original creative idea is indicated in the activity, and the creative person is given the corresponding rights and thanks. If there is a misappropriation of the creativity and labor of others without the permission of others, it will be directly delisted and made public on the whole network.
All withdrawal requests will be set for one-week buffer time. Members have one and only one chance to voluntarily withdraw the withdrawal request during the buffer period. The reason for the withdrawal is required.
Member online communication way
Online communication and important information notifications related to team activities and work are published on the “nailing” platform, and records are kept for review. Life-related information is published in the WeChat group.
Collaboration on all bioinformatics open source projects is based on the open source code hosting site [GitHub-openbiox] (https://github.com/openbiox). Other online instant communication methods are determined by internal discussions in the practice group. Some important communication or event information is shared or saved as screenshots for later publicity.
Practice project development process
Creative ideas: impromptu brain holes (usually at any time) and focused discussions (in the first two weeks of March).
In order to prevent the project from being too rampant and casual, the members of the Standing Committee initiated the Epiphany Brain Practice Project (with no time limit for initiation), which can initiate different levels of practice within openbiox during the term of its tenure with other at least three members of the Standing Committee. The innovative project was approved by more than half of the members of the Standing Committee and was initiated after the number of respondents met the project requirements. Other members can initiate it after communicating with a member of the Standing Committee (the members of the Standing Committee are strictly prohibited to ask for relevant interests, and if the relevant circumstances occur, they will be deprived of their standing membership).
The focused discussion was mainly during the project creative meeting in the first two weeks of March, during which all openbiox members brainstormed, collected and collated all the projects that may be carried out and carried out this year, and focused on providing human, financial and equipment support. s project. The start of the meeting should be completed no later than the second week of March after the Standing Committee has confirmed it.
Practical project creative collection method:
- Project ideas that are open to everyone: Submit Issues for distribution at https://github.com/openbiox/openbiox-public-ideas.
- Project ideas open to all openbiox members: submitted by nailing daily.
After the project creative brainstorming session, the Standing Committee will discuss and review the projects to be newly funded and launched this year, and all members will freely decide whether to apply for participation. All non-full-participating practice projects need to set a certain number of participants and personnel screening requirements, and screening and forming a small team among all applicants. Each person should participate in at least one small practice team each year and contribute at least one practice project (not less than a certain amount of work). At least three workloads and project progress assessments should be conducted each year, and personnel adjustments and project progress planning should be carried out for small teams that are unqualified or whose project progress is not in line with expectations.
For key support projects with large capital use and high labor costs, a more detailed project plan should be provided as the basis for review and key review. The main auditing perspectives include at least two of the following: feasibility, innovation, practicality, audience broad, and potential impact.
The proponent of the project idea can choose to participate in the completion and release of the project at the same time. Finally, the project practitioner and all members of the organization share the intellectual property rights, and the equity ratio is determined by the former two. If the project generates revenue, the third portion of the equity will go directly to the organizational resource pool for use by the openbiox project.
All projects are proposed, participated, completed, and managers should write project insights, reflections, and gains after the project are completed, and publish them within the organization or in public media.
Project resource source, sharing, and distribution
The project resources are mainly from the donation or sharing of members in the organization (mainly including funds, equipment, venues, technical guidance), out-of-organization sponsorship (general users, commercial companies), universities/institutions/national funds, and the income of all projects in the previous year. Divided into.
All resources owned by the organization need to enter the “resource pool”, which is allocated by the Standing Committee based on the specific workload of the project, the user needs, the skills of the practice group, and the number of participants. If the Resource Pool does not meet the support requirements at some time, it may be necessary for the project manager and its Standing Committee members to initiate donations or reinforcement initiatives within and outside the organization.
Proposed to carry out innovative practice project types
Getting started and basic
- New and updated Wiki Wikipedia and Baidu Encyclopedia entries
- Translation and commentary of Chinese and English book materials
- Planning, writing/recording of text and video tutorials related to bioinformatics/programming skills
Verification, mining, and visualization of public databases and documents for application development
Standardized development and construction of data analysis processes
Initial application of statistical and machine learning algorithms (such as previous mathematics modeling contest title exercises and report writing)
Disassembly and learning of high-quality open source project source code
Reptile data collection
High-order transformation research
Collection, collation, and construction of databases and knowledge bases for disease diagnosis and treatment (eg trait association of genetic test results, or target association of cancer gene test results)
Clinical medical data analysis and application (eg medical image and image data processing based on machine learning and other algorithms, medical diagnosis and prognosis prediction robot)
Multi-omics data integration algorithms and visualization application development; TB/PB level data analysis application development
Project practice results exchange and sharing
Every year in the first week of October, an annual offline meeting is organized. Members of the organization vote to decide on the venue and city, and try to get sponsored resources to support the meeting. All practical projects, whether completed or not, need to be summarized and reported at the annual meeting: the main content includes the project progress process, presentation of results, on-site teaching and demonstration, experience summary and the participants' harvest and thinking. At the scene, the participants will vote according to certain scoring standards, and the ratings will be A, B, and C.
In view of the long-term implementation and maintenance of many open source projects, after the project is completed, the project leader and participants can choose whether to proceed (to be included in the new annual mission development plan) or transfer the maintenance rights of the corresponding project. If the person responsible for continuing maintenance cannot be found inside or outside the organization, the project will enter the Archive state, leaving only the readable permissions.
Project supervision and review
In order to prevent waste of resources and embezzlement, at least one member of the Standing Committee will be appointed as a supervisor in each practice group. Supervisors need to communicate regularly with practice group members and resource providers to document and verify resource usage. At the same time, the Standing Committee regularly conducts inquiries and online/offline reviews of the projects undertaken, and jointly assesses the completion of the project, the enthusiasm of the members, the members' gains and growth, and conducts A, B, and C assessments. If the two consecutive audits are C, the Standing Committee has the right to change the project leader or adjust the project participants.
If the practice project participant applies to withdraw from the current project, it is necessary to apply to the project leader and the standing committee member for explanation and explain the reasons. If you want to participate in other projects that have already started to operate after the project is launched, you need to apply for approval from the responsible team leader and the standing committee members.
All openbiox members should prioritize their time and priorities for each type of task. They need to participate in or engage in openbiox event discussions and project practices after they have completed their daily learning and work tasks. Members who are unable to participate in relevant exchange discussions and their responsible project practice work due to various irresistible factors shall report to the members of the Standing Committee and their responsible project team and request relevant personnel to assist in the completion.
openbiox's various event notifications and free discussions should focus on non-working hours (7:00-9:00; 11:30-13:30; 17:00-24:00) to avoid affecting the normal work of members.
The Standing Committee will hold a regular meeting every two weeks. The main topics include:
Staff adjustments (such as discussions and voting on new and exits; departmental adjustments; additions and exclusions of project members)
Project progress arrangements and plans
Summarize the experience and difficulties encountered in the project and find potential solutions
Inventing, Optimizing, Sharing
遵循扁平化管理思想，由常务委员会，项目行动组，资助人三者构成。组织成员在项目进行中无级别关系，杜绝一切对 openbiox 发展有害或者分裂 openbiox 的行为。
常务委员会： 每年 3 月初，由全体成员投票选举产生，14-18 人，每一名常务委员会成员应当承担明确的管理职责，任期一年，并实行轮值制度，每两个星期由其中两人负责 openbiox 内主要事物。另需设置 6 人作为常务委员会轮值人员（优质项目提出者、积极贡献者、乐于助人者等等），作为openbiox 管理人才梯队建设项目。常务委员会换届选举候选人应由当届常务委员会成员提名，并经全体常务委员会成员超过半数同意。一般情况下，常务委员会候选人应当具备以下至少 4-5 个条件（如果是其他特殊人才也可以破格提名）：
项目行动组： 由成员自愿选择是否加入，提供 openbiox 生物信息学项目设想并开展项目的实际开发、测试、发布、运维。依据项目创意数、成员兴趣、技能等组成实践组。原则上每一个实践组至少含有一名常务委员会成员和一名技术指导人员。
资助人： openbiox 内外的个人或机构。所有资助不论金额大小均应登记，全体成员应感谢与珍惜，并适当提供一定特权（如资源的优先使用权、优先内推权利、提供开源项目主页或文档的广告位展示等）。
- 每年 2 月底 3 月初进行线上宣传，以投递简历和邮件申请的方式招收具备高自驱力 openbiox 成员。纳新申请需通过常务委员会成员半数同意才准许加入 openbiox。完成集中纳新后，举行常务委员会换届选举，进入下一年度工作计划和流程。
- 在常务委员会成员任期内，可以由任一常务委员会成员推荐新成员加入，相关推荐人需常务委员会成员半数同意通过。常务委员会成员，每人每年度有 5 人的推荐名额。
- 由实践项目负责人及其负责常务委员会成员共同申请，主要用于招募：项目开展急需的相关专业人员；积极参与开源实践项目并且强烈希望加入 openbiox 。相关申请需常务委员会成员半数同意通过。
为了保证一部分项目的启动经费，以及提高 openbiox 成员的项目参与积极性，计划在每年常规纳新结束后，向全体成员收取项目建设经费（不超过 100 元），特殊情况（如提供其他方式的等额资助、对 openbiox 建设和实践项目有重要贡献）应予以免除和返还。其他非常规纳新时间加入的 openbiox 成员也需进行缴纳，特殊情况同上也可以予以免除。
openbiox 欢迎所有有热情、有责任心、有想法、有能力、自驱力高的朋友加入。对于长期不关心、不响应、不参与 openbiox 讨论、交流、实践等活动的成员，我们会予以劝导退出（征求其本人最后意见及常务委员会全体成员表决）。如果成员连续 2 个月对 openbiox 的所有活动和实践项目无任何响应和贡献，将默认视为向 openbiox 委员会申请主动退出。
所有由 openbiox 成员提出的内部共享项目创意（非完全公开的），所有成员不得对非 openbiox 人员公开。如果成员需要基于其他 openbiox 成员提出的创意项目独立开展相关研究或者开发活动（如对项目创意内容进行进一步扩展和改造），应当提前与项目创意提出人和常务委员会成员进行沟通，并需要在后续研究活动中注明原始创意想法的出处，并给予创意提出人相应权益和感谢。如果发生未经他人许可盗用他人创意和劳动果实的将直接予以除名，并全网公开。
为防止项目提出的过于泛滥和随意，主要由常务委员会成员发起顿悟脑洞实践项目（无发起时间限制），其可以在其任期内联合其他至少 3 位常务委员会成员在 openbiox 内部发起不同层次的实践创新项目，获得超半数常务委员会成员同意，并且响应人数符合项目要求后进行启动。其他成员则可以通过和某一常务委员会成员沟通讨论之后发起（常务委员会成员严禁以此索要相关利益，若发生相关情形，将剥夺其常委资格）。
集中讨论则主要在 3 月份的前两个星期内的项目创意会议，期间通过所有 openbiox 成员进行头脑风暴，收集和整理所有本年度可能要开展和进行的项目、以及重点要提供人力、资金和设备支持的项目。会议开始时间应在常务委员会确定之后，不晚于 3 月份的第二个星期结束。
- 对所有人公开的项目创意：通过 https://github.com/openbiox/openbiox-public-ideas 提交Issues进行发布。
- 对所有 openbiox 成员公开的项目创意：通过钉钉日报进行提交。
对于资金使用量大、人力成本较高的重点支持项目应当提供一份较为详细的项目计划书作 为审核依据，并进行重点审核。主要审核角度主要包括以下的至少 2 项：可行性、创新性、实用性、受众的广泛度、潜在影响力。
项目创意的提出者可以同时选择全程参与项目的完成和发布，最终和项目实践者、组织全体成员共有知识产权，权益比例由前二者商议决定。如果项目产生收益，其中第三部分权益将直接进入组织资源池供 openbiox 项目利用。
- Wiki 百科和百度百科词条的新增和更新
每年度 10 月份第一周举行组织线下年度会议，由组织成员投票决定举办地点和城市，并尽量获取赞助资源支持会议进行。所有实践项目不论完成与否，均需在年度会议上进行总结和汇报：主要内容包括项目进展过程、成果展示、现场教学和演示、经验总结以及参与人员的收获和思考。现场由参与人员依照一定评分标准进行投票打分，评级 A、B、C 三等。
鉴于很多开源项目会长期进行和维护，在项目完成后，项目负责人和参与人可以选择是否继续进行（将纳入新一年度任务开展计划）或转移相应项目的维护权。若组织内外均无法找到继续维护的负责人，项目将进入 Archive 状态，只保留可读权限。
为了杜绝资源浪费、贪污挪用情况发生，会在每一个实践组中至少安排一位常务委员会成员作为监督员。监督员需要和实践组成员及资源提供者定期沟通，记录和核实资源使用情况。同时，由常务委员会定期对开展的项目进行问询和线上/线下审阅，共同评估项目完成情况、成员参与的积极性、成员收获和成长，并进行 A，B，C 等级评估。如果连续两次审核均为 C，常务委员会有权进行项目负责人更换或者项目参与人员调整。
所有 openbiox 成员应该合理安排时间和各类任务的优先级，需要是在已经完成其日常学习和工作任务之后再参与或者进行 openbiox 的活动讨论以及项目实践。成员如果因为各种不可抗拒因素不能参加相关交流讨论和其负责的项目实践工作，应当向常务委员会成员及其所在实践项目组负责人报备，并请求相关人员进行辅助完成。
openbiox 各类活动通知和自由讨论应当集中在非工作时间（7:00-9:00; 11:30-13:30; 17:00-24:00），避免影响成员的正常工作