Pausing Peak Expression Method 5

About Pausing Peak Expression is a DNAnexus applet.

Required Input Files

A Set of exp_tar.gz Files – Select a set of files with naming convention sample_name_exp_tar.gz.

1. A Set of exp_tar.gz Files for Group A.
2. A Set of exp_tar.gz Files for Group B.

Output Files

• Summary HTML File – This provides a simple landing webpage to explain results files.
• R Plots PDF File – A PDF containing DESeq2 graphs.
• Directory Containing:
  • Sample Annottion File – Sample Annottion File used to discribe the sample groups and condition.
  • Raw Counts File – Raw counts file.
  • Normalized Counts File – Normalized counts file.
  • DESeq2 Contrast Results File – A PDF containing DESeq2 graphs.
  • RData File – This is an R data object that excapsulates all of the required data for pcaExplorer.
  • RMarkdown File – RStudio Desktop for installing required packages and launching pcaExplorer.

For NCI Members

• Find out more about GAU’s DNAnexus Pilot Program.
• For NCI Members who want to use DNAnexus or develop you must get an account.

Developed by GAU

• Peter FitzGerald (email: fitzgepe@mail.nih.gov)
• Carl McIntosh (email: mcintoshc@mail.nih.gov)