SchulzLab

TEPIC

Annotation of genomic regions using transcription factor binding sites and epigenetic data

ORNA

Fast in-silico normalization algorithm for NGS data

STARE

TF analysis from epigenetic and Hi-C data

EpigenomicsTutorial-ISMB2017

Repository for the Epigenomics Tutorial hold at ISMB 2017 in Prague

STITCHIT

Learning gene-specific regulatory elements from epigenetic data

Aeron

Alignment, quantification and fusion prediction from long RNA reads

SNEEP

SNp Exploration and Analysis using EPigenomics data

EpigenomeAnalysisTutorial-2020

This website contains material for an epigenome analysis tutorial that covers ATAC-seq analysis and integration with TF motifs and gene expression

RAPID

RAPID is a set of tools for the alignment, and analysis of genomic regions with small RNA clusters derived from small RNA sequencing data.

Triangulate

Inferring regulators from single cell RNA-seq data

TriplexAligner

A method for sequence based prediction of RNA-DNA triplices.

SOS

Automated de novo transcriptome assembly

JAMI

Java tool for computing conditional mutual information from large datasets

MASSIF

Improved motif enrichment analysis using protein domain type information

SingleCellStitchit

Learning enhancer-gene interactions from single cell data

Codefinder

Learning translation code between sets of DNA motifs

MOPRED-website

SplitOrfs

A workflow to computationally detect transcripts that could generate several distinct ORFs that match to the same protein. This can be used to find for example nonsense-mediated decay transcripts that make more than one ORF.

CADLinc

iSeelect

Shiny server wrapper for analysis of data with ISEE

scRNA_TF_Integrator

Integrate scRNA data with TF binding site prediction analysis

AMIAtlas

EpiRegioDB-1

Analysis and retrieval of Regulatory EleMents (REMs) linked to genes

GAZE

single cell regulatory analyzer

Liver-Steatosis-Supplementary

This project hosts additional scripts part of the recent paper about epigenomic analysis in liver steatosis

MakeTitlesGreatAgain

Helper file to fix wrong capitalisation in latex references

MetaCellaR

metacelling things

PairedSC

RNAFunctionPrediction

Methods for supervised prediction of RNA function

TripLexicon

Source code and info for the TripLexicon Webserver