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reif-lab.org

Reif named Managing Editor of journal BioData Mining

http://www.reif-lab.org/entries/general/reif-named-managing-editor-of-journal-<i>biodata-mining<-i><br><br>

Atom" title="Comments" rel="alternate" type="application/atom xml" /. David M. Reif. A picture is worth a thousand data points. Reif named Managing Editor of journal BioData Mining. July 13, 2015. David Reif has been named the new Managing Editor of the journal. Promotes principles of scientific transparency, including open-access, open peer-review, and data sharing. The Editors-in-Chief are Jason H. Moore. University of Pennsylvania) and Marylyn D. Ritchie. Comments for this post have been disabled.

visualization.ritchielab.psu.edu

Visualization

http://visualization.ritchielab.psu.edu/synthesis_views/examples

Center for System Genomics. Synthesis-View created the image below using the Synthesis-View sample file. Provided. The settings used:. Synthesis-View created the image below using the Synthesis-View sample SNP color file. Provided. The settings used:. SNP Names With User-Specified Colors. Include direction of effect? Synthesis-View created the image below using the Synthesis-View sample file. Provided. The settings used:. Draw line at this p-value:. Provided. The settings used:.

visualization.ritchielab.psu.edu

Visualization

http://visualization.ritchielab.psu.edu/phewas_suns/plot

Center for System Genomics. Containing position and phenotype information". P value highlight threshold. Privacy and Legal Statements.

visualization.ritchielab.psu.edu

Visualization

http://visualization.ritchielab.psu.edu/phenograms/document

Center for System Genomics. Phenogram plots phenotypes that have been associated with SNPs or other locations along the genome. The genome is displayed divided into separate chromosomes as below:. Phenogram accepts a text file as the data input for generating the image. The file must be tab-delimited and recognizes the following headers. The file can contain other headers and PhenoGram will ignore them. Base pair location of the SNP or in the case of a region, the starting location. Other (opens a file u...

visualization.ritchielab.psu.edu

Visualization

http://visualization.ritchielab.psu.edu/phewas_views/document

Center for System Genomics. PheWAS-View creates visual summaries of the SNP, gene, phenotype, and association information resulting from PheWAS studies. PheWAS-View requires a text file as the data input for generating the image. The file must be tab-delimited and have the following header line and at least the following 3 columns:. SNP (SNP or other region ID). This PheWAS-View sample file. PHENOTYPE CLASS (general class of phenotype). LOWER CI (lower confidence interval). N (number of samples). Current...

visualization.ritchielab.psu.edu

Visualization

http://visualization.ritchielab.psu.edu/phewas_views/examples

Center for System Genomics. PheWAS-View created the image below using the PheWAS-View sample file. Provided. The settings used:. Red line p value:. P value highlight threshold:. PheWAS-View created the image below using the PheWAS-View extended sample file. To produce a plot that displays the p values and direction of effect for a single SNP and multiple groups across different phenotypes. The settings used:. Single SNP results with multiple groups. Red line p value:. P value highlight threshold:.

visualization.ritchielab.psu.edu

Visualization

http://visualization.ritchielab.psu.edu/home/index

Center for System Genomics. We have developed a set of visualization tools. The currently available tools are PhenoGram. They can be used through the web interface on this site or downloaded as standalone scripts. Privacy and Legal Statements.

visualization.ritchielab.psu.edu

Visualization

http://visualization.ritchielab.psu.edu/synthesis_views/document

Center for System Genomics. Synthesis-View is a data visualization application. Through the use of stacked data-tracks, information on SNP genomic locations, presence of the SNP in a specific study or analysis, as well as related information such as genetic effect size and summary phenotype information, are available for plotting according to user preference. Is an optional column that specifies the name of the SNP to display on the plot. If absent, the SNP. P value), es. Effect size), betauci. Number of...