Rensselaer Polytechnic Institute

Senior Lecturer in Computer Science

Senior Lecturer in Computer Science. Currently teaching CS1 and advising the Rensselaer Center for Open Source, a large, Undergraduate run program in open source software development.

Rensselaer Polytechnic Institute

Senior Lecturer and Director of the Rensselaer Center for Open Source

Leader and Director of the RCOS program, responsible for recruiting members, selecting teams, guiding students, mentoring student leaders and project mentors, establishing evaluation criteria, and in collaboration with the RCOS Associate Director, developing relationships with corporate sponsors who contribute to RCOS both financially and in terms of professional development and Arch opportunities.

Rensselaer Polytechnic Institute

Adjunct Instructor

Teaching CSCI1100, an introductory computer science course, to a class of 250 students. The course is a fast paced python based exploration of basic computer science concepts beginning with variables and statements and ending with classes and recursion. At the end, the students are expected to be prepared for Data Structures (CSCI1200). Course is co-taught with Professor Chuck Stewart.

OSEHRA (Open Source Electronic Health Record Alliance)

Director of Open Source Operations

While under contract to OSEHRA I am serving as Director of Open Source Operations overseeing the technical solutions and social aspects of open source community building and maintenance. My specific responsibilities revolve around ensuring that the OSEHRA community has the tools it needs to effectively evaluate the quality of code contributions; certify, perform intake on, and publicize code of sufficiently high quality; and provide tools and forums for continued code evaluation and development. I am specifically interested in automated testing, dashboarding and code coverage utilities.

OSEHRA (Open Source Electronic Health Record Agent)

Director of Open Source Services

While under contract to OSEHRA I am serving as Director of Open Source Services in support of community building, code intake, testing and certification.

The College of Saint Rose

Adjunct Faculty

Taught Introduction to Computer Science. Responsible for lectures and labs teaching approximately 25 non-majors an introductory course in computer science. Course covered the history of CS and basic hardware and introductory skills in HTML, Java, Excel

Simquest

Computer Scientist

Computational mathematics support in the design and development of simulators for surgical procedures and wound analysis. PI on a USAISR supported effort to map burn extent and severity onto morphologically accurate patient avatars. The model based analysis allows for the determination of specific cutaneous functional units impacted by burns as well as an improved calculation of total body area impacted.

Tracking flow of leukocytes in blood for drug analysis

SPIE

Tracking flow of leukocytes in blood for drug analysis

SPIE

Tracking flow of leukocytes in blood for drug analysis

SPIE

Tracking flow of leukocytes in blood for drug analysis

SPIE

Tracking flow of leukocytes in blood for drug analysis

SPIE

Tracking flow of leukocytes in blood for drug analysis

SPIE

An Automated Approach and Virtual Environment for Generating Maintenance Instructions

Extended Abstracts of CHI 2002 Conference on Human Factors in Computing Systems

Tracking flow of leukocytes in blood for drug analysis

SPIE

An Automated Approach and Virtual Environment for Generating Maintenance Instructions

Extended Abstracts of CHI 2002 Conference on Human Factors in Computing Systems

A Virtual Approach to Maintenance Manual Development

Concurrent Engineering – Research and Applications, Proceedings of the Ninth ISPE International Conference on Concurrent Engineering

Maintenance of complex machinery such as aircraft engines requires reliable and accurate documentation, including illustrated parts catalogs (IPCs), exploded views, and technical manuals describing how to remove, inspect, repair and install parts. For new designs, there are often time constraints for getting a new engine to the field, and the available documentation must go with it. Authoring technical manuals is a complex process involving technical writers, engineers, as well as domain experts (mechanics and designers). Often, several revisions are required before a manual has correct IPC figures and maintenance instructions. Compounding this problem is that technical writers often perform tasks better suited for computers, leading to increased costs and error.In this demonstration, we describe a new framework to generate maintenance instructions from solid models (Computer Aided Design/CAD data) and then validate these instructions in a haptics-enabled virtual environment. Our approach utilizes natural language processing techniques to generate a presentation-independent logical form, which can be transformed for display within the virtual environment. During the development of the system, task analyses, human models, usability studies, and domain experts were used to gain insights. The end result is a more integrated and human-centered process for developing technical manuals, providing higher quality documents with less cost.

Tracking flow of leukocytes in blood for drug analysis

SPIE

An Automated Approach and Virtual Environment for Generating Maintenance Instructions

Extended Abstracts of CHI 2002 Conference on Human Factors in Computing Systems

A Virtual Approach to Maintenance Manual Development

Concurrent Engineering – Research and Applications, Proceedings of the Ninth ISPE International Conference on Concurrent Engineering

Maintenance of complex machinery such as aircraft engines requires reliable and accurate documentation, including illustrated parts catalogs (IPCs), exploded views, and technical manuals describing how to remove, inspect, repair and install parts. For new designs, there are often time constraints for getting a new engine to the field, and the available documentation must go with it. Authoring technical manuals is a complex process involving technical writers, engineers, as well as domain experts (mechanics and designers). Often, several revisions are required before a manual has correct IPC figures and maintenance instructions. Compounding this problem is that technical writers often perform tasks better suited for computers, leading to increased costs and error.In this demonstration, we describe a new framework to generate maintenance instructions from solid models (Computer Aided Design/CAD data) and then validate these instructions in a haptics-enabled virtual environment. Our approach utilizes natural language processing techniques to generate a presentation-independent logical form, which can be transformed for display within the virtual environment. During the development of the system, task analyses, human models, usability studies, and domain experts were used to gain insights. The end result is a more integrated and human-centered process for developing technical manuals, providing higher quality documents with less cost.

A Multi-Institutional Perspective on H/FOSS Projects in the Computing Curriculum

ACM Trans. Comput. Educ.

Many computer science programs have capstone experiences or project courses that allow students to integrate knowledge from the full breadth of their major. Such capstone projects may be student-designed, instructor-designed, designed in conjunction with outside companies, or integrated with ongoing free and open source (FOSS) projects. The literature shows that the FOSS approach has attracted a great deal of interest, in particular when implemented with projects that have humanitarian goals (HFOSS). In this article, we describe five unique models from five distinct types of institutions for incorporating sustained FOSS or HFOSS (alternatively H/FOSS) project work into capstone experiences or courses. The goal is to provide instructors wishing to integrate open source experiences into their curriculum with additional perspectives and resources to help in adapting this approach to the specific needs and goals of their institution and students. All of the models presented are based on sustained engagement with H/FOSS projects that last at least one semester and often more. Each model is described in terms of its characteristics and how it fits the needs of the institution using the model. Assessment of each model is also presented. We then discuss the themes that are common across the models, such as project selection, team formation, mentoring, and student assessment. We examine the choices made by each model, as well as the challenges faced. We end with a discussion how the models have leveraged institutional initiatives and collaborations with outside organizations to address some of the challenges associated with these projects.

Tracking flow of leukocytes in blood for drug analysis

SPIE

An Automated Approach and Virtual Environment for Generating Maintenance Instructions

Extended Abstracts of CHI 2002 Conference on Human Factors in Computing Systems

A Virtual Approach to Maintenance Manual Development

Concurrent Engineering – Research and Applications, Proceedings of the Ninth ISPE International Conference on Concurrent Engineering

Maintenance of complex machinery such as aircraft engines requires reliable and accurate documentation, including illustrated parts catalogs (IPCs), exploded views, and technical manuals describing how to remove, inspect, repair and install parts. For new designs, there are often time constraints for getting a new engine to the field, and the available documentation must go with it. Authoring technical manuals is a complex process involving technical writers, engineers, as well as domain experts (mechanics and designers). Often, several revisions are required before a manual has correct IPC figures and maintenance instructions. Compounding this problem is that technical writers often perform tasks better suited for computers, leading to increased costs and error.In this demonstration, we describe a new framework to generate maintenance instructions from solid models (Computer Aided Design/CAD data) and then validate these instructions in a haptics-enabled virtual environment. Our approach utilizes natural language processing techniques to generate a presentation-independent logical form, which can be transformed for display within the virtual environment. During the development of the system, task analyses, human models, usability studies, and domain experts were used to gain insights. The end result is a more integrated and human-centered process for developing technical manuals, providing higher quality documents with less cost.

A Multi-Institutional Perspective on H/FOSS Projects in the Computing Curriculum

ACM Trans. Comput. Educ.

Many computer science programs have capstone experiences or project courses that allow students to integrate knowledge from the full breadth of their major. Such capstone projects may be student-designed, instructor-designed, designed in conjunction with outside companies, or integrated with ongoing free and open source (FOSS) projects. The literature shows that the FOSS approach has attracted a great deal of interest, in particular when implemented with projects that have humanitarian goals (HFOSS). In this article, we describe five unique models from five distinct types of institutions for incorporating sustained FOSS or HFOSS (alternatively H/FOSS) project work into capstone experiences or courses. The goal is to provide instructors wishing to integrate open source experiences into their curriculum with additional perspectives and resources to help in adapting this approach to the specific needs and goals of their institution and students. All of the models presented are based on sustained engagement with H/FOSS projects that last at least one semester and often more. Each model is described in terms of its characteristics and how it fits the needs of the institution using the model. Assessment of each model is also presented. We then discuss the themes that are common across the models, such as project selection, team formation, mentoring, and student assessment. We examine the choices made by each model, as well as the challenges faced. We end with a discussion how the models have leveraged institutional initiatives and collaborations with outside organizations to address some of the challenges associated with these projects.

Fostering Open Science in Lung Cancer Lesion Sizing with ITK module LSTK

Insight Journal

This document describes the latest efforts in integrating the Lesion Sizing Toolkit (LSTK) into ITK v4 as an external/remote module providing an Open Science dashboard website with a large open image archive of lung cancer CT images for LSTK development and testing.

Tracking flow of leukocytes in blood for drug analysis

SPIE

An Automated Approach and Virtual Environment for Generating Maintenance Instructions

Extended Abstracts of CHI 2002 Conference on Human Factors in Computing Systems

A Virtual Approach to Maintenance Manual Development

Concurrent Engineering – Research and Applications, Proceedings of the Ninth ISPE International Conference on Concurrent Engineering

Maintenance of complex machinery such as aircraft engines requires reliable and accurate documentation, including illustrated parts catalogs (IPCs), exploded views, and technical manuals describing how to remove, inspect, repair and install parts. For new designs, there are often time constraints for getting a new engine to the field, and the available documentation must go with it. Authoring technical manuals is a complex process involving technical writers, engineers, as well as domain experts (mechanics and designers). Often, several revisions are required before a manual has correct IPC figures and maintenance instructions. Compounding this problem is that technical writers often perform tasks better suited for computers, leading to increased costs and error.In this demonstration, we describe a new framework to generate maintenance instructions from solid models (Computer Aided Design/CAD data) and then validate these instructions in a haptics-enabled virtual environment. Our approach utilizes natural language processing techniques to generate a presentation-independent logical form, which can be transformed for display within the virtual environment. During the development of the system, task analyses, human models, usability studies, and domain experts were used to gain insights. The end result is a more integrated and human-centered process for developing technical manuals, providing higher quality documents with less cost.

A Multi-Institutional Perspective on H/FOSS Projects in the Computing Curriculum

ACM Trans. Comput. Educ.

Many computer science programs have capstone experiences or project courses that allow students to integrate knowledge from the full breadth of their major. Such capstone projects may be student-designed, instructor-designed, designed in conjunction with outside companies, or integrated with ongoing free and open source (FOSS) projects. The literature shows that the FOSS approach has attracted a great deal of interest, in particular when implemented with projects that have humanitarian goals (HFOSS). In this article, we describe five unique models from five distinct types of institutions for incorporating sustained FOSS or HFOSS (alternatively H/FOSS) project work into capstone experiences or courses. The goal is to provide instructors wishing to integrate open source experiences into their curriculum with additional perspectives and resources to help in adapting this approach to the specific needs and goals of their institution and students. All of the models presented are based on sustained engagement with H/FOSS projects that last at least one semester and often more. Each model is described in terms of its characteristics and how it fits the needs of the institution using the model. Assessment of each model is also presented. We then discuss the themes that are common across the models, such as project selection, team formation, mentoring, and student assessment. We examine the choices made by each model, as well as the challenges faced. We end with a discussion how the models have leveraged institutional initiatives and collaborations with outside organizations to address some of the challenges associated with these projects.

Fostering Open Science in Lung Cancer Lesion Sizing with ITK module LSTK

Insight Journal

This document describes the latest efforts in integrating the Lesion Sizing Toolkit (LSTK) into ITK v4 as an external/remote module providing an Open Science dashboard website with a large open image archive of lung cancer CT images for LSTK development and testing.

Computer-aided forensics: facial reconstruction

Studies in health technology and informatics

ABSTRACT: The 3D reconstruction of facial features from skeletal remains is a key component to the identification of missing persons and victims of violent crime. A comprehensive Computed Tomography (CT) head-scan database is currently being collected which will enable a new approach to forensic facial reconstruction. Using this unique resource, we show how a face space can be tailored to a specific unknown, or questioned skull. A set of database derived estimates of the questioned face is constructed by first computing non-rigid transformations between the known head-scan skulls and the questioned skull followed by application of these transformations to the known head-scan faces. This effectively factors out influences due to skeletal variation. A tailored face space is formed by applying Principal Component Analysis (PCA) to this ensemble of estimates of the questioned face. Thus, the face space is a direct approximation of correlated soft tissue variance indicative of the population. Ours is the first mathematical representation of the face continuum associated with a given skull. Embedded in this space resides the elements needed for recognition.

Tracking flow of leukocytes in blood for drug analysis

SPIE

An Automated Approach and Virtual Environment for Generating Maintenance Instructions

Extended Abstracts of CHI 2002 Conference on Human Factors in Computing Systems

A Virtual Approach to Maintenance Manual Development

Concurrent Engineering – Research and Applications, Proceedings of the Ninth ISPE International Conference on Concurrent Engineering

Maintenance of complex machinery such as aircraft engines requires reliable and accurate documentation, including illustrated parts catalogs (IPCs), exploded views, and technical manuals describing how to remove, inspect, repair and install parts. For new designs, there are often time constraints for getting a new engine to the field, and the available documentation must go with it. Authoring technical manuals is a complex process involving technical writers, engineers, as well as domain experts (mechanics and designers). Often, several revisions are required before a manual has correct IPC figures and maintenance instructions. Compounding this problem is that technical writers often perform tasks better suited for computers, leading to increased costs and error.In this demonstration, we describe a new framework to generate maintenance instructions from solid models (Computer Aided Design/CAD data) and then validate these instructions in a haptics-enabled virtual environment. Our approach utilizes natural language processing techniques to generate a presentation-independent logical form, which can be transformed for display within the virtual environment. During the development of the system, task analyses, human models, usability studies, and domain experts were used to gain insights. The end result is a more integrated and human-centered process for developing technical manuals, providing higher quality documents with less cost.

A Multi-Institutional Perspective on H/FOSS Projects in the Computing Curriculum

ACM Trans. Comput. Educ.

Many computer science programs have capstone experiences or project courses that allow students to integrate knowledge from the full breadth of their major. Such capstone projects may be student-designed, instructor-designed, designed in conjunction with outside companies, or integrated with ongoing free and open source (FOSS) projects. The literature shows that the FOSS approach has attracted a great deal of interest, in particular when implemented with projects that have humanitarian goals (HFOSS). In this article, we describe five unique models from five distinct types of institutions for incorporating sustained FOSS or HFOSS (alternatively H/FOSS) project work into capstone experiences or courses. The goal is to provide instructors wishing to integrate open source experiences into their curriculum with additional perspectives and resources to help in adapting this approach to the specific needs and goals of their institution and students. All of the models presented are based on sustained engagement with H/FOSS projects that last at least one semester and often more. Each model is described in terms of its characteristics and how it fits the needs of the institution using the model. Assessment of each model is also presented. We then discuss the themes that are common across the models, such as project selection, team formation, mentoring, and student assessment. We examine the choices made by each model, as well as the challenges faced. We end with a discussion how the models have leveraged institutional initiatives and collaborations with outside organizations to address some of the challenges associated with these projects.

Fostering Open Science in Lung Cancer Lesion Sizing with ITK module LSTK

Insight Journal

This document describes the latest efforts in integrating the Lesion Sizing Toolkit (LSTK) into ITK v4 as an external/remote module providing an Open Science dashboard website with a large open image archive of lung cancer CT images for LSTK development and testing.

Computer-aided forensics: facial reconstruction

Studies in health technology and informatics

ABSTRACT: The 3D reconstruction of facial features from skeletal remains is a key component to the identification of missing persons and victims of violent crime. A comprehensive Computed Tomography (CT) head-scan database is currently being collected which will enable a new approach to forensic facial reconstruction. Using this unique resource, we show how a face space can be tailored to a specific unknown, or questioned skull. A set of database derived estimates of the questioned face is constructed by first computing non-rigid transformations between the known head-scan skulls and the questioned skull followed by application of these transformations to the known head-scan faces. This effectively factors out influences due to skeletal variation. A tailored face space is formed by applying Principal Component Analysis (PCA) to this ensemble of estimates of the questioned face. Thus, the face space is a direct approximation of correlated soft tissue variance indicative of the population. Ours is the first mathematical representation of the face continuum associated with a given skull. Embedded in this space resides the elements needed for recognition.

A novel method of automated skull registration for forensic facial approximation

Forensic Science International

Abstract: Modern forensic facial reconstruction techniques are based on an understanding of skeletal variation and tissue depths. These techniques rely upon a skilled practitioner interpreting limited data. To (i) increase the amount of data available and (ii) lessen the subjective interpretation, we use medical imaging and statistical techniques. We introduce a software tool, reality enhancement/facial approximation by computational estimation (RE/FACE) for computer-based forensic facial reconstruction. The tool applies innovative computer-based techniques to a database of human head computed tomography (CT) scans in order to derive a statistical approximation of the soft tissue structure of a questioned skull. A core component of this tool is an algorithm for removing the variation in facial structure due to skeletal variation. This method uses models derived from the CT scans and does not require manual measurement or placement of landmarks. It does not require tissue-depth tables, can be tailored to specific racial categories by adding CT scans, and removes much of the subjectivity of manual reconstructions. Keywords: Facial reconstruction; Deformation; Thin-plate spline; Forensic art; Human identification; Human remains

Tracking flow of leukocytes in blood for drug analysis

SPIE

An Automated Approach and Virtual Environment for Generating Maintenance Instructions

Extended Abstracts of CHI 2002 Conference on Human Factors in Computing Systems

A Virtual Approach to Maintenance Manual Development

Concurrent Engineering – Research and Applications, Proceedings of the Ninth ISPE International Conference on Concurrent Engineering

Maintenance of complex machinery such as aircraft engines requires reliable and accurate documentation, including illustrated parts catalogs (IPCs), exploded views, and technical manuals describing how to remove, inspect, repair and install parts. For new designs, there are often time constraints for getting a new engine to the field, and the available documentation must go with it. Authoring technical manuals is a complex process involving technical writers, engineers, as well as domain experts (mechanics and designers). Often, several revisions are required before a manual has correct IPC figures and maintenance instructions. Compounding this problem is that technical writers often perform tasks better suited for computers, leading to increased costs and error.In this demonstration, we describe a new framework to generate maintenance instructions from solid models (Computer Aided Design/CAD data) and then validate these instructions in a haptics-enabled virtual environment. Our approach utilizes natural language processing techniques to generate a presentation-independent logical form, which can be transformed for display within the virtual environment. During the development of the system, task analyses, human models, usability studies, and domain experts were used to gain insights. The end result is a more integrated and human-centered process for developing technical manuals, providing higher quality documents with less cost.

A Multi-Institutional Perspective on H/FOSS Projects in the Computing Curriculum

ACM Trans. Comput. Educ.

Many computer science programs have capstone experiences or project courses that allow students to integrate knowledge from the full breadth of their major. Such capstone projects may be student-designed, instructor-designed, designed in conjunction with outside companies, or integrated with ongoing free and open source (FOSS) projects. The literature shows that the FOSS approach has attracted a great deal of interest, in particular when implemented with projects that have humanitarian goals (HFOSS). In this article, we describe five unique models from five distinct types of institutions for incorporating sustained FOSS or HFOSS (alternatively H/FOSS) project work into capstone experiences or courses. The goal is to provide instructors wishing to integrate open source experiences into their curriculum with additional perspectives and resources to help in adapting this approach to the specific needs and goals of their institution and students. All of the models presented are based on sustained engagement with H/FOSS projects that last at least one semester and often more. Each model is described in terms of its characteristics and how it fits the needs of the institution using the model. Assessment of each model is also presented. We then discuss the themes that are common across the models, such as project selection, team formation, mentoring, and student assessment. We examine the choices made by each model, as well as the challenges faced. We end with a discussion how the models have leveraged institutional initiatives and collaborations with outside organizations to address some of the challenges associated with these projects.

Fostering Open Science in Lung Cancer Lesion Sizing with ITK module LSTK

Insight Journal

This document describes the latest efforts in integrating the Lesion Sizing Toolkit (LSTK) into ITK v4 as an external/remote module providing an Open Science dashboard website with a large open image archive of lung cancer CT images for LSTK development and testing.

Computer-aided forensics: facial reconstruction

Studies in health technology and informatics

ABSTRACT: The 3D reconstruction of facial features from skeletal remains is a key component to the identification of missing persons and victims of violent crime. A comprehensive Computed Tomography (CT) head-scan database is currently being collected which will enable a new approach to forensic facial reconstruction. Using this unique resource, we show how a face space can be tailored to a specific unknown, or questioned skull. A set of database derived estimates of the questioned face is constructed by first computing non-rigid transformations between the known head-scan skulls and the questioned skull followed by application of these transformations to the known head-scan faces. This effectively factors out influences due to skeletal variation. A tailored face space is formed by applying Principal Component Analysis (PCA) to this ensemble of estimates of the questioned face. Thus, the face space is a direct approximation of correlated soft tissue variance indicative of the population. Ours is the first mathematical representation of the face continuum associated with a given skull. Embedded in this space resides the elements needed for recognition.

A novel method of automated skull registration for forensic facial approximation

Forensic Science International

Abstract: Modern forensic facial reconstruction techniques are based on an understanding of skeletal variation and tissue depths. These techniques rely upon a skilled practitioner interpreting limited data. To (i) increase the amount of data available and (ii) lessen the subjective interpretation, we use medical imaging and statistical techniques. We introduce a software tool, reality enhancement/facial approximation by computational estimation (RE/FACE) for computer-based forensic facial reconstruction. The tool applies innovative computer-based techniques to a database of human head computed tomography (CT) scans in order to derive a statistical approximation of the soft tissue structure of a questioned skull. A core component of this tool is an algorithm for removing the variation in facial structure due to skeletal variation. This method uses models derived from the CT scans and does not require manual measurement or placement of landmarks. It does not require tissue-depth tables, can be tailored to specific racial categories by adding CT scans, and removes much of the subjectivity of manual reconstructions. Keywords: Facial reconstruction; Deformation; Thin-plate spline; Forensic art; Human identification; Human remains

Sustainable Software Ecosystems for Open Science

Workshop on Sustainable Software: Practices and Experiences

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Senior Member

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