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cardinalmsi.org

Cardinal MSI – A mass spectrometry imaging toolbox for statistical analysis

A mass spectrometry imaging toolbox for statistical analysis. Cardinal is an R package that implements statistical and computational tools for analyzing mass spectrometry imaging datasets, including methods for efficient pre-processing, spatial segmentation, and classification. May 4, 2016. 8212; Cardinal 1.4. Is available on Bioconductor 3.3. December 16, 2015. 8212; Cardinal 1.3. Is available on Github with *experimental*. Working with larger-than-memory datasets on disk. June 10, 2015. For technical s...

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Cardinal MSI – A mass spectrometry imaging toolbox for statistical analysis | cardinalmsi.org Reviews
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A mass spectrometry imaging toolbox for statistical analysis. Cardinal is an R package that implements statistical and computational tools for analyzing mass spectrometry imaging datasets, including methods for efficient pre-processing, spatial segmentation, and classification. May 4, 2016. 8212; Cardinal 1.4. Is available on Bioconductor 3.3. December 16, 2015. 8212; Cardinal 1.3. Is available on Github with *experimental*. Working with larger-than-memory datasets on disk. June 10, 2015. For technical s...
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Cardinal MSI – A mass spectrometry imaging toolbox for statistical analysis | cardinalmsi.org Reviews

https://cardinalmsi.org

A mass spectrometry imaging toolbox for statistical analysis. Cardinal is an R package that implements statistical and computational tools for analyzing mass spectrometry imaging datasets, including methods for efficient pre-processing, spatial segmentation, and classification. May 4, 2016. 8212; Cardinal 1.4. Is available on Bioconductor 3.3. December 16, 2015. 8212; Cardinal 1.3. Is available on Github with *experimental*. Working with larger-than-memory datasets on disk. June 10, 2015. For technical s...

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Workflows – Cardinal MSI

http://cardinalmsi.org/workflows

A mass spectrometry imaging toolbox for statistical analysis. Cardinal comes with a walkthrough vignette that demonstrates many of its basic and advanced functionalities on simulated datasets. The companion data package CardinalWorkflows includes vignettes that work through specific workflows (clustering, classification, etc.) on real data. Human Renal Cell Carcinoma (RCC). PLS-DA (Projection to Latent Structures Discriminant Analysis). Spatial Shrunken Centroids classification. Cardinal help Google Group.

2

Datasets – Cardinal MSI

http://cardinalmsi.org/datasets

A mass spectrometry imaging toolbox for statistical analysis. The companion data package CardinalWorkflows contains the following example datasets (saved as R data files):. Human Renal Cell Carcinoma (RCC). Whole Pig Fetus Cross-Section. They are available as a separate download on the CardinalWorkflows releases. Page, and are included in the CardinalWorkflows package when downloaded from Bioconductor (see Installation. Available only on the Github release of CardinalWorkflows. Cardinal help Google Group.

3

Installation – Cardinal MSI

http://cardinalmsi.org/installation

A mass spectrometry imaging toolbox for statistical analysis. Install R ( =3.2) from http:/ www.r-project.org. Install Cardinal from Bioconductor by starting R and entering:. Source("http:/ bioconductor.org/biocLite.R"). Start Cardinal by entering:. Install R ( =3.2) from http:/ www.r-project.org. Install CardinalWorkflows from Bioconductor by starting R and entering:. Source("http:/ bioconductor.org/biocLite.R"). Load CardinalWorkflows by entering:. Cardinal help Google Group.

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bioconductor.org bioconductor.org

Bioconductor - Cardinal

http://bioconductor.org/packages/release/bioc/html/Cardinal.html

To install this package, start R and enter:. Try http:/ if https:/ URLs are not supported source("https:/ bioconductor.org/biocLite.R") biocLite("Cardinal"). In most cases, you don't need to download the package archive at all. A mass spectrometry imaging toolbox for statistical analysis. Bioconductor version: Release (3.3). Author: Kyle D. Bemis <kbemis at purdue.edu>. Citation (from within R, enter. To install this package, start R and enter:. Cardinal design and development. For learning and use.

stat.purdue.edu stat.purdue.edu

Purdue University : Department of Statistics : Kyle Bemis Wins John M. Chambers Statistical Software Award 2015

http://www.stat.purdue.edu/news/2015/Bemis_ChambersAward2015.html

Statistics Graduate Student Resumes. STAT Help Room hours. KCS Pillai Memorial Lectures. Prem S. Puri Memorial Lecture. Myra Samuels Memorial Lectures. Kyle Bemis Wins John M. Chambers Statistical Software Award 2015. Kyle Bemis Wins John M. Chambers Statistical Software Award 2015. June,  2015. Congratulations to Kyle Bemis (Ph.D. program, studying under Olga Vitek), who recently won the ASA John M. Chambers Statistical Software Award 2015 for his R software package. Jun 3, 2015 10:52 AM.

olga-vitek-lab.org olga-vitek-lab.org

Software -

http://olga-vitek-lab.org/software

College of Computer and Information Science. Boston, Massachusetts 02115. 8212; Menu —. MSstats is an R package for statistical relative quantification of proteins and peptides in mass spectrometry-based proteomics. It supports label-free and label-based experimental workflows and data-dependent, targeted and data-independent spectral acquisition. It takes as input identified and quantified spectral peaks, and outputs a list of differentially abundant peptides or proteins, or summaries of peptide...

bioinformatics.oxfordjournals.org bioinformatics.oxfordjournals.org

Cardinal: an R package for statistical analysis of mass spectrometry-based imaging experiments

http://bioinformatics.oxfordjournals.org/content/early/2015/04/03/bioinformatics.btv146

View Current Issue (Volume 32 Issue 16 August 15, 2016). Version of this article. Was published on 2015-07-07. An R package for statistical analysis of mass spectrometry-based imaging experiments. Kyle D. Bemis. Livia S. Eberlin. Stephanie M. van de Ven. Department of Statistics and. Department of Chemistry, Purdue University, West Lafayette, IN 47907 USA,. Canary Center at Stanford for Cancer Early Detection, Stanford University School of Medicine, Palo Alto, CA 94304 USA,. College of Science and. Simil...

olga-vitek-lab.org olga-vitek-lab.org

News -

http://olga-vitek-lab.org/news

College of Computer and Information Science. Boston, Massachusetts 02115. 8212; Menu —. Eralp presents our research at VII Proteomics Workshop. The VII Proteomics Workshop will be held by the Brazilian Biosciences National Laboratory (LNBio) at the Brazilian Center. Meena, April, Ting, Sara and Kylie are traveling to Grace Hopper Celebration of Women in Computing. Olga and Meena are organizing a session on Proteomics in the Era of Large Datasets at Northeast Regional Life Sciences Core Directors(NERLSCD).

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Cardinal MSI – A mass spectrometry imaging toolbox for statistical analysis

A mass spectrometry imaging toolbox for statistical analysis. Cardinal is an R package that implements statistical and computational tools for analyzing mass spectrometry imaging datasets, including methods for efficient pre-processing, spatial segmentation, and classification. May 4, 2016. 8212; Cardinal 1.4. Is available on Bioconductor 3.3. December 16, 2015. 8212; Cardinal 1.3. Is available on Github with *experimental*. Working with larger-than-memory datasets on disk. June 10, 2015. For technical s...

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