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Supporting Scientific Discovery through Norms and Practices for Software and Data Citation and Attribution

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Julia Puzak onto News, blogs, journal articles

If We Share Data, Will Anyone Use Them? Data Sharing and Reuse in the Long Tail of Science and Technology

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Julia Puzak onto News, blogs, journal articles

NIH BD2K Software Discovery Index Workshop

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Julia Puzak onto Workshops

http://bd2k.nih.gov/#sthash.7r0vNJDR.dpbs

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Julia Puzak onto NIH BD2K

ADDS Current Vision Statement, October 2014

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Julia Puzak onto NIH BD2K

NIH Commons

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Julia Puzak onto NIH BD2K

NIH Common Fund Big Data to Knowledge

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Julia Puzak onto NIH BD2K

microDimensions Debuts Free Whole Slide Viewer Zoom

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Brandon D. Gallas onto Managing WSI images

FDA Proposes Guidelines For Electronic Informed Consent For Clinical Trials

Executive Summary: The agency believes that interactive electronic informed consent processes may improve study subjects’ retention and understanding of information about clinical trials compared to simple printed materials, but sponsors should take care to understand how subjects are interacting with the electronic systems, FDA says is a draft guidance.

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Brandon D. Gallas onto News and info

Center for Hybrid Multicore Productivity (CHMPR)

http://UMBC campus map

1000 Hilltop Cir, Baltimore, MD 21250

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Brandon D. Gallas onto News and info

RandomSpot

RandomSpot is a web‑based tool for SRS in stereology, which systematically places equidistant points within a given region of interest on a virtual slide.

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Brandon D. Gallas onto Related Software

3D Slicer

3D Slicer is a multi-platform, free and open source software package for visualization and medical image computing. 3D Slicer pre-compiled application is freely available for Windows, Mac and Lunux. 3D Slicer is the main delivery platform for the ITCR QIICR project

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Andrey Fedorov onto ITCR Training Assets

Color standardization in whole slide imaging using a color calibration slide

Background: Color consistency in histology images is still an issue in digital pathology. Different imaging systems reproduced the colors of a histological slide differently. Materials and Methods: Color correction was implemented using the color information of the nine color patches of a color calibration slide. The inherent spectral colors of these patches along with their scanned colors were used to derive a color correction matrix whose coefficients were used to convert the pixels' colors to their target colors. Results: There was a significant reduction in the CIELAB color difference, between images of the same H & E histological slide produced by two different whole slide scanners by 3.42 units, P < 0.001 at 95% confidence level. Conclusion: Color variations in histological images brought about by whole slide scanning can be effectively normalized with the use of the color calibration slide.

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Brandon D. Gallas onto Color

Hue-saturation-density (HSD) model for stain recognition in digital images from transmitted light microscopy

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Brandon D. Gallas onto Color

OncoSpace

OncoSpace: An Online Community for Collaborative Radiation Oncology Research

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Ishwar Chandramouliswaran onto Databases

VIPS is a free image processing system.

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Brandon D. Gallas onto Managing WSI images

Bio-Formats: The Open Microscopy Environment

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Brandon D. Gallas onto Managing WSI images

openslide - A MATLAB toolbox for reading whole-slide images

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Brandon D. Gallas onto Managing WSI images

IEEE Standared for Software User Documentation

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Brandon D. Gallas onto Documentation Development

Generate documentation from source code

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Brandon D. Gallas onto Documentation Development