groHMM 1.26.0 – Analysis of GRO-seq data

groHMM 1.26.0

:: DESCRIPTION

groHMM is a pipeline for the analysis of GRO-seq data.

::DEVELOPER

Danko Lab 

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows/ Linux / MacOsX
  • R
  • BioConductor

:: DOWNLOAD

 groHMM

:: MORE INFORMATION

Citation

BMC Genomics. 2014 Feb 24;15:155. doi: 10.1186/1471-2164-15-155.
Dynamic reorganization of the AC16 cardiomyocyte transcriptome in response to TNFα signaling revealed by integrated genomic analyses.
Luo X, Chae M, Krishnakumar R, Danko CG, Kraus WL

dREG – Detection of Regulatory DNA Sequences using GRO-seq Data

dREG

:: DESCRIPTION

dREG is a software for detection of active regulatory elements (promoters & enhancers) using GRO-seq and PRO-seq data.

::DEVELOPER

Danko Lab 

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows/ Linux
  • R

:: DOWNLOAD

 dREG

:: MORE INFORMATION

Citation

Nat Methods. 2015 Mar 23. doi: 10.1038/nmeth.3329.
Identification of active transcriptional regulatory elements from GRO-seq data.
Danko CG, Hyland SL, Core LJ, Martins AL, Waters CT, Lee HW, Cheung VG, Kraus WL, Lis JT, Siepel A