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KimLabIDV
eagle-i ID
http://eagle-i.itmat.upenn.edu/i/00000153-f7b9-a77b-33dc-9f8080000000
Resource Type
Properties
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Resource Description
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"This program is developed based on the Shiny framework, a set of R packages and a collection of scripts written by members of Junhyong Kim Lab at University of Pennsylvania. Its goal is to facilitate fast and interactive RNA-Seq data analysis and visualization. Current version of IDV supports routine RNA-Seq data analysis including DESeq normalization, differential expression analysis, principal component analysis, pairwise correlation, hierarchical/K-means clustering, group classification and plotting of gene heatmap. It also supports report generation and program state sharing.
KimLabIDV is provided as an R package and runs as a web application. It has been tested on Mac OSX and Windows."
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Additional Name
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An Interactive Data Visualization Tool for Single-Cell Gene Expression Analysis
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Used by
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Kim Laboratory: Computational Evolutionary Biology
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Version
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1.03
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Operating System
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Mac OSX
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Operating System
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Windows
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Data Input
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Count files
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Data Output
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Normalized counts
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Data Output
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Basic data statistics
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Data Output
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ERCC read distribution
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Data Output
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Differentially expressed genes
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Data Output
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Monocle Cell State Ordering
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Data Output
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Correlation analysis pairwise scatterplot
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Data Output
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Sample correlation heatmap
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Data Output
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Feature heatmap
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Data Output
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Dimension reduction results
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Data Output
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Classification
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Data Output
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Report
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Software purpose
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Gene expression data correction objective
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Software purpose
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Documentation generation objective
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Software purpose
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Differential expression analysis objective
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Software purpose
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Gene expression analysis
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Software purpose
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Data rendering and visualization objective
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Website(s)
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http://kim.bio.upenn.edu/software/idv.shtml
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Related Technique
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Single-cell gene expression assay
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Related Technique
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RNA sequencing
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Developed by
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Kim Laboratory: Computational Evolutionary Biology
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Software license
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Academic software license
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Coded in
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R language
