Research Scientist, Computational Pipelines

We need to output HTML fragment with sections: About the role, Responsibilities, Requirements, Qualifications, Skills, Benefits, Pay, Schedule. Only include sections that have real specific content. We must not repeat job title. No metadata like Job ID. Remove boilerplate. We need to parse the posting. Let's extract content. Paragraphs: "This is an engineering-oriented science role, owning and advancing the computational pipeline that turns terabyte-scale image volumes into reconstructions worth simulating. The job involves careful thinking about which changes matter and why, rigorous benchmarking, and sharp observation of where the pipeline fails in production, then fixing what you find. You work, as needed, with other Mindspan teams (Scalable Chemistry, Optical Physiology, Microscopy and Optics, and Automation and Industrialization), and directly with the experimentalists and annotators whose data you train on, using logic and evidence to advance your work so as to boost the performance of all. Own the segmentation pipeline end to end: alignment, preprocessing, dense prediction, agglomeration, and handoff to proofreading.Build the benchmarks: curated ground-truth volumes, and metrics that track what errors cost downstream.Make evaluation automated and reproducible, with regression safeguards.Run the data flywheel: find where the pipeline fails in production, request targeted annotations, and retrain.Build the tooling that connects annotators and proofreaders to the training data.Report measurable outcomes to institute leadership: throughput, cost, and error rates across conditions.Documentation: keep pipeline documentation and experiment records that others can build on." That's responsibilities. Then list of qualifications: "Ph.D. in computer science, electrical engineering, applied mathematics, computational biology, neuroscience, or a related field, or equivalent industry experience.Proven expertise training models for 3D and large-image segmentation on real, messy datasets.Demonstrated ability to drive measurable improvements over many iterations, with rigorous benchmarking.Strong Python and PyTorch, version control, and testing discipline.Hands-on experience with chunked arrays, out-of-core processing, distributed computing, and cluster or cloud orchestration.Sound engineering judgment, and the scientific rigor to tell real improvements from noise.Ability to work directly with experimentalists and annotators.Experience with neural circuit reconstruction: affinity prediction, watershed, agglomeration, flood-filling, or synapse detection.Familiarity with Neuroglancer, CAVE, webKnossos, VAST, or similar proofreading platforms.Experience with production data engines or active learning, for example in autonomous driving or medical imaging.Experience adapting large pretrained segmentation models to microscopy.Experience with volume registration and alignment.Contributions to open-source scientific software or benchmarks." Then mission statement about disorders etc. Might be "About the role" or "About us". We'll treat as About the role maybe. Then values: "We operate with a sense of urgency..." etc. Could be part of About the role or separate "About Mindspan". We'll include as About the role. Then "The ideal candidate is a scientist-engineer who naturally crosses disciplinary boundaries..." etc. That's more qualifications/skills. Then "This is an in-person job. Flexible hours may be required at times." That's schedule. Then benefits: "Comprehensive health, dental, vision, and family benefits, and a matching retirement contribution." Pay: "Competitive salary ($120,000 to $159,000), depending on experience." Also "The chance to build the segmenting pipeline of a new research institute alongside some of the most adventurous scientists in the field, with real autonomy and a direct line to the people setting the scientific agenda. You will get to contribute to addressing one of the most important unmet medical needs of our time, as part of the initial team. You will learn lots of things that probably cannot be learned any other way, as you solve problems, build, and work with others. As Mindspan grows, we expect this role to grow with it. We are excited to invest in someone who wants to take on increasing responsibility over time." That's more about role/benefits/growth. We need sections: About the role, Responsibilities, Requirements, Qualifications, Skills, Benefits, Pay, Schedule. We must avoid filler like "commensurate with experience". Not present. We need to decide what goes where. About the role: description of role, mission, impact, team, values. Could combine first paragraph and mission statement and values. Responsibilities: bullet list of duties: own segmentation pipeline end to end, build benchmarks, make evaluation automated, run data flywheel, build tooling, report outcomes, documentation. Requirements: maybe education/experience baseline: Ph.D. or equivalent industry experience. Qualifications: maybe more specific qualifications like proven expertise training models, etc. Skills: technical skills: Python, PyTorch, version control, testing, chunked arrays, out-of-core, distributed computing, cluster/cloud orchestration, etc. But we need to avoid duplication. Let's map. We have many bullet-like statements separated by periods. We'll convert each to

. We'll need to decide sections. Let's extract bullet points for responsibilities: - Own the segmentation pipeline end to end: alignment, preprocessing, dense prediction, agglomeration, and handoff to proofreading. - Build the benchmarks: curated ground-truth volumes, and metrics that track what errors cost downstream. - Make evaluation automated and reproducible, with regression safeguards. - Run the data flywheel: find where the pipeline fails in production, request targeted annotations, and retrain. - Build the tooling that connects annotators and proofreaders to the training data. - Report measurable outcomes to institute leadership: throughput, cost, and error rates across conditions. - Documentation: keep pipeline documentation and experiment records that others can build on. Also earlier: "The job involves careful thinking about which changes matter and why, rigorous benchmarking, and sharp observation of where the pipeline fails in production, then fixing what you find." Could be part of responsibilities. Also: "You work, as needed, with other Mindspan teams (Scalable Chemistry, Optical Physiology, Microscopy and Optics, and Automation and Industrialization), and directly with the experimentalists and annotators whose data you train on, using logic and evidence to advance your work so as to boost the performance of all." That's also responsibility. We'll include those. Now Requirements: maybe "Ph.D. in computer science, electrical engineering, applied mathematics, computational biology, neuroscience, or a related field, or equivalent industry experience." Qualifications: maybe "Proven expertise training models for 3D and large-image segmentation on real, messy datasets. Demonstrated ability to drive measurable improvements over many iterations, with rigorous benchmarking." Skills: list of technical skills: Strong Python and PyTorch, version control, and testing discipline. Hands-on experience with chunked arrays, out-of-core processing, distributed computing, and cluster or cloud orchestration. Sound engineering judgment, and the scientific rigor to tell real improvements from noise. Ability to work directly with experimentalists and annotators. Experience with neural circuit reconstruction: affinity prediction, watershed, agglomeration, flood-filling, or synapse detection. Familiarity with Neuroglancer, CAVE, webKnossos, VAST, or similar proofreading platforms. Experience with production data engines or active learning, for example in autonomous driving or medical imaging. Experience adapting large pretrained segmentation models to microscopy. Experience with volume registration and alignment. Contributions to open-source scientific software or benchmarks. Also maybe "The ideal candidate is a scientist-engineer who naturally crosses disciplinary boundaries. You are intellectually curious, relentlessly practical, and happiest when solving problems that have never been solved before. You have a strong detail orientation and exceptional organizational, planning, interpersonal, and communication skills. You are good at writing, can work independently and lead and manage, and can prioritize and multitask as needed. Self-motivation, commitment to high quality standards, and a service-oriented mindset are all key. You have good judgment, balancing flexibility and focus, action and planning, speed and thoughtfulness, as appropriate. You are open to giving and receiving feedback, constructively and thoughtfully, to advance scientific missions and personal growth." Those are more soft skills/qualities; could go under Skills or Qualifications. We'll put under Skills maybe as "Soft skills". But we need to avoid too many sections; we can combine some. We have Benefits: "Comprehensive health, dental, vision, and family benefits, and a matching retirement contribution." Pay: "Competitive salary ($120,000 to $159,000), depending on experience." Schedule: "This is an in-person job. Flexible hours may be required at times." Also growth opportunities: "The chance to build the segmenting pipeline of a new research institute alongside some of the most adventurous scientists in the field, with real autonomy and a direct line to the people setting the scientific agenda. You will get to contribute to addressing one of the most important unmet medical needs of our time, as part of the initial team. You will learn lots of things that probably cannot be learned any other way, as you solve problems, build, and work with others. As Mindspan grows, we expect this role to grow with it. We are excited to invest in someone who wants to take on increasing responsibility over time." Could be part of About the role or Benefits? Probably About the role. Now we need to output HTML fragment with sections only if they have content. We'll produce:

About the role

... paragraphs ...

Responsibilities

• ...
...

Requirements

• Ph.D. in computer science, electrical engineering, applied mathematics, computational biology, neuroscience, or a related field, or equivalent industry experience.

Qualifications

• Proven expertise training models for 3D and large-image segmentation on real, messy datasets.
• Demonstrated ability to drive measurable improvements over many iterations, with rigorous benchmarking.

Skills

• Strong Python and PyTorch, version control, and testing discipline.
• Hands-on experience with chunked arrays, out-of-core processing, distributed computing, and cluster or cloud orchestration.
• Sound engineering judgment, and the scientific rigor to tell real improvements from noise.
• Ability to work directly with experimentalists and annotators.
• Experience with neural circuit reconstruction: affinity prediction, watershed, agglomeration, flood-filling, or synapse detection.
• Familiarity with Neuroglancer, CAVE, webKnossos, VAST, or similar proofreading platforms.
• Experience with production data engines or active learning, for example in autonomous driving or medical imaging.
• Experience adapting large pretrained segmentation models to microscopy.
• Experience with volume registration and alignment.
• Contributions to open-source scientific software or benchmarks.
• Intellectually curious, relentlessly practical, and happiest when solving problems that have never been solved before.
• Strong detail orientation and exceptional organizational, planning, interpersonal, and communication skills.
• Good at writing, able to work independently, lead and manage, prioritize and multitask as needed.
• Self‑motivated, committed to high quality standards, and service‑oriented.
• Good judgment balancing flexibility and focus, action and planning, speed and thoughtfulness.
• Open to giving and receiving constructive feedback to advance scientific missions and personal growth.

Benefits

• Comprehensive health, dental, vision, and family benefits.
• Matching retirement contribution.

Pay

Competitive salary ($120,000 to $159,000), depending on experience.

Schedule

This is an in‑person job. Flexible hours may be required at times.

We also need to include the mission/growth paragraph maybe in About the role. Let's craft About the role paragraph(s