chromoMap v0.1

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Interactive Visualization and Mapping of Human Chromosomes

Provides interactive, configurable and elegant graphics visualization of the human chromosomes allowing users to map chromosome elements (like genes, SNPs etc.) on the chromosome plot. It introduces a special plot viz. the "chromosome heatmap" that, in addition to mapping elements, can visualize the data associated with chromosome elements (like gene expression) in the form of heat colors which can be highly advantageous in the scientific interpretations and research work. Because of the large size of the chromosomes, it is impractical to visualize each element on the same plot. However, the plot provides a magnified view for each of chromosome location to render additional information and visualization specific for that location. You can map thousands of genes and can view all mappings easily. Users can investigate the detailed information about the mappings (like gene names or total genes mapped on a location) or can view the magnified single or double stranded view of the chromosome at a location showing each mapped element in sequential order. The plots can be saved as HTML documents that can be customized and shared easily. In addition, you can include them in R Markdown or in R 'Shiny' applications.

Functions in chromoMap

Name Description
chromoMapToHTML convert chromoMap plots into customizable HTML documents
chromoMap-shiny Shiny bindings for chromoMap
chromoMap render interactive chromosome plots
pancandata Gene Expression RNAseq data for Pancreatic Adenocarcinoma from TCGA
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Vignettes of chromoMap

Name
images/anno.png
images/annoTip.png
images/annocolor.png
images/bgcol.png
images/border.png
images/chromoCol.png
images/heatDouble.png
images/heatDoubleTip.png
images/heatSingle.png
images/heatSingleTip.png
images/horizontal.png
images/wiredchrom.png
chromoMap.Rmd
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Details

Type Package
License GPL-3 | file LICENSE
Encoding UTF-8
LazyData false
VignetteBuilder knitr
RoxygenNote 6.0.1
NeedsCompilation no
Packaged 2018-05-14 15:18:14 UTC; LAKSHAY
Repository CRAN
Date/Publication 2018-05-15 16:08:37 UTC

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