Computational Regulatory Genomics

Software


List of all Software from the Lab

 

Prediction of coding and non-coding genes:

NASTISeq

PIPmiR

RNAmetabolism

RSVP

 

Promoter and enhancer analysis:

Orthologous Enhancers

S-Peaker

McEnhancer

 

TF target site identification:

FootprintMixture

FootprintPipeline

 

ChIP/CLIP analysis:

cERMIT

Crosslinked-sequence (Cseq) Simulator

JAMM

PARalyzer

 

miRNA target prediction:

MUMMIE

TargetThermo

 

Ribosome profiling:

RiboTaper

 

Regulatory network topology:

WaRSwap

 

Gene expression imaging:

Root_imaging_pipeline

 

Analysis of Ribosome-binding proteins: 

DeepRiPe

omniCLIP

ssHMM

SSMART

RCK

 

Identification of RNA editing events:

JACUSA

 

Best practice tools for sequencing:

The RNA workbench



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