Contributions

Manuscript design and writing

Scott M. Smith, Malachi Griffith, and Obi L. Griffith with input from David J. Dooling.

Analysis of test-data for manuscript

Scott M. Smith, Malachi Griffith, Obi L. Griffith, and Benjamin J. Ainscough.

Original Architecture design

Scott M. Smith, James M. Eldred, Anthony M. Brummett, and Ben J. Oberkfell with input from David J. Dooling.

Scaling up of the GMS architecture

Jason R. Walker, Gabriel E. Sanderson, Christopher C. Harris, Adam Dukes and Edward A. Belter

Design of the current state of the core-system

Thomas P. Mooney, Nathaniel G. Nutter, Allison A. Regier and Brian R. Derickson

Processing profiles

Gary Stiehr

Build Tracking

Christopher C. Harris

Production of the HCC1395 data in the laboratory

Nicole Maher, Christopher A. Maher and Vincent J. Magrini.

Development of the alignment API

Jason R. Walker, Christopher C. Harris, Ben J. Oberkfell, Scott M. Smith, Thomas P. Mooney, Adam Dukes, Adam C. Coffman, Gabriel E. Sanderson and Edward A. Belter.

Design of the variant detection API

Gary Stiehr, Robert L. Long, Travis E. Abbott, Anthony M. Brummett and Scott M. Smith.

Sequence transformation APIs

Edward A. Belter, Kyung H. Kim, and Feiyu Du.

Development of the workflow system

Eric Clark, Lynn K. Carmichael, Jason R. Walker, Anthony M. Brummett, Edward A. Belter, Scott M. Smith, Travis E. Abbott, Mark M. Burnett, David L. Morton, Adam C. Coffman and David E. Larson.

Development of the annotation system

Xiaoqi Shi, Li Ding, Michael D. McLellan, Gary Stiehr, Adam Dukes, Edward A. Belter, James V. Weible, Allison A. Regier, Scott M. Smith.

The original somatic pipeline workflow was developed by

David E. Larson, Daniel C. Koboldt, Nathan D. Dees, Christopher C. Harris, Gabriel E. Sanderson, Robert L. Long, Feiyu Du, Brian R. Derickson, Malachi Griffith, David E. Larson, James V. Weible, Christopher A. Miller, and Scott M. Smith.

The validation system was developed

by Nathan D. Dees, Daniel C. Koboldt, David E. Larson, Thomas P. Mooney and James V. Weible.

Development of the GMS analysis software modules

Thomas P. Mooney, Gabriel E. Sanderson, Nathaniel G. Nutter, ARR, Travis E. Abbott, Ian T. Ferguson, Adam C. Coffman, James V. Weible, David L. Morton, Adam Dukes, David E. Larson, Mark M. Burnett, Christopher C. Harris, Xiaoqi Shi, Robert L. Long, Joshua B. Peck, Joshua F. McMichael, Anthony M. Brummett, Ben J. Oberkfell, TCC, Christopher A. Maher, Edward A. Belter, Todd N. Wylie, Benjamin S. Abbott, Cyriac Kandoth, Nathan D. Dees, Benjamin J. Ainscough, Jason R. Walker, Xin Hong, Nathaniel G. Nutter, Daniel C. Koboldt, William S. Schierding, Christopher A. Miller, Kyung H. Kim, Ken Chen, Xian Fan, Feiyu Du, Matthew B. Callaway, James M. Eldred, Jasreet Hundal, Brian R. Derickson, Justin T. Lolofie, Eric Clark, Avinash Ramu, Malachi Griffith, Obi L. Griffith and Scott M. Smith,

Contributions of LIMS integration

Shawn M. Leonard, Craig S. Pohl, Todd G. Hepler, Indraniel Das, Benjamin S. Abbott and Amy E. Hawkins.

Cancer analysis processing profiles and tools

Malachi Griffith, Obi L. Griffith, David E. Larson, Li Ding, Michael D. McLellan, Jason R. Walker, Daniel C. Koboldt, Nathan D. Dees, Charles Lu, Christopher A. Miller, Christopher A. Maher, Christopher C. Harris, William S. Schierding, Xiaoqi Shi, Jasreet Hundal, Todd N. Wylie, Cyriac Kandoth, Matthew B. Callaway, Xin Hong, Ken Chen, Xian Fan, Gabriel E. Sanderson, Allison A. Regier, Feiyu Du, Scott M. Smith and Benjamin S. Abbott.

Germline analysis processing profiles

David E. Larson, Daniel C. Koboldt, Charles Lu, William S. Schierding, Travis E. Abbott, Christopher C. Harris, Robert L. Long, and Gabriel E. Sanderson.

Reference sequence analysis code

Edward A. Belter, Kyung H. Kim, Travis E. Abbott, and Allison A. Regier. UR and App API were the work of Scott M. Smith, Anthony M. Brummett, Todd G. Hepler, David J. Dooling, Craig S. Pohl, James M. Eldred, Eric Clark, Nathaniel G. Nutter, Brian R. Derickson, Travis E. Abbott, Ben J. Oberkfell, Indraniel Das, Jason R. Walker and Matthew B. Callaway.

Design of the sample and patient tracking system

Scott M. Smith, Craig S. Pohl, Lynn K. Carmichael and Brian R. Derickson. The disk allocation system was developed by William E. Schroeder, Michael J. Kiwala, Todd G. Hepler, Amy E. Hawkins, Benjamin S. Abbott, Indraniel Das, TCC, Justin T. Lolofie, Craig S. Pohl, Brian R. Derickson, Nathaniel G. Nutter, Ben J. Oberkfell, James V. Weible and Anthony M. Brummett.

Development of the web interface

Ben J. Oberkfell, Justin T. Lolofie, Eric Clark, Joshua F. McMichael, Adam C. Coffman and Ben J. Oberkfell.

Computational platform behind the GMS

David J. Dooling, Richard W. Wohlstadter, Matthew B. Callaway, Gary Stiehr, Matthew R. Weil, Nathaniel G. Nutter, Eric Clark, Craig S. Pohl, Joshua F. McMichael, AB, Adam C. Coffman, Brian R. Derickson and Scott M. Smith.

System federation

Scott M. Smith.

Installation testing and debugging

Scott M. Smith, Malachi Griffith, Obi L. Griffith, Avinash Ramu, Zachary L. Skidmore and Michael J. Kiwala.

The GMS project was overseen by

David J. Dooling, Li Ding, Elaine R. Mardis and Richard K. Wilson.