eagle-i The University of PennsylvaniaThe University of Pennsylvania
See it in Search
This page is a preview of the following resource. Continue onto eagle-i search using the button on the right to see the full record.

KimLabIDV

eagle-i ID

http://eagle-i.itmat.upenn.edu/i/00000153-f7b9-a77b-33dc-9f8080000000

Resource Type

  1. Algorithmic software suite

Properties

  1. Resource Description
    "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."
  2. Additional Name
    An Interactive Data Visualization Tool for Single-Cell Gene Expression Analysis
  3. Used by
    Kim Laboratory: Computational Evolutionary Biology
  4. Version
    1.03
  5. Operating System
    Mac OSX
  6. Operating System
    Windows
  7. Data Input
    Count files
  8. Data Output
    Normalized counts
  9. Data Output
    Basic data statistics
  10. Data Output
    ERCC read distribution
  11. Data Output
    Differentially expressed genes
  12. Data Output
    Monocle Cell State Ordering
  13. Data Output
    Correlation analysis pairwise scatterplot
  14. Data Output
    Sample correlation heatmap
  15. Data Output
    Feature heatmap
  16. Data Output
    Dimension reduction results
  17. Data Output
    Classification
  18. Data Output
    Report
  19. Software purpose
    Gene expression data correction objective
  20. Software purpose
    Documentation generation objective
  21. Software purpose
    Differential expression analysis objective
  22. Software purpose
    Gene expression analysis
  23. Software purpose
    Data rendering and visualization objective
  24. Website(s)
    http://kim.bio.upenn.edu/software/idv.shtml
  25. Related Technique
    Single-cell gene expression assay
  26. Related Technique
    RNA sequencing
  27. Developed by
    Kim Laboratory: Computational Evolutionary Biology
  28. Software license
    Academic software license
  29. Coded in
    R language
 
RDFRDF
 
Provenance Metadata About This Resource Record
  1. workflow state
    Published
  2. contributor
    fcoldren
  3. created
    2016-04-08T17:15:21.445-04:00
  4. creator
    fcoldren
  5. modified
    2016-04-08T18:12:12.695-04:00

Copyright © 2016 by the President and Fellows of Harvard College
The eagle-i Consortium is supported by NIH Grant #5U24RR029825-02 / Copyright 2016