shwhalen / targetfinderView external linksLinks
☆84Feb 3, 2021Updated 5 years ago
Alternatives and similar repositories for targetfinder
Users that are interested in targetfinder are comparing it to the libraries listed below
Sorting:
- JEME method for predicting enhancer targets☆11Jul 15, 2017Updated 8 years ago
- ☆18Sep 6, 2022Updated 3 years ago
- Modeling Enhancer-Promoter Interactions with Attention-Based Neural Networks☆10Feb 13, 2018Updated 8 years ago
- Hotspot is a program for identifying genomic regions of local enrichment of short-read sequence tags.☆16Apr 12, 2014Updated 11 years ago
- 7C: Computational Chromosome Conformation Capture by Correlation of ChIP-seq at CTCF motifs☆13Oct 15, 2025Updated 4 months ago
- Code for finding putative enhancers using Hi-C data☆28Feb 27, 2018Updated 7 years ago
- DeepTACT: predicting three-dimensional chromatin contacts via bootstrapping deep learning☆20Jul 23, 2020Updated 5 years ago
- SeqPlots - An interactive tool for visualizing NGS signals and sequence motif densities along genomic features using average plots and he…☆87May 11, 2022Updated 3 years ago
- Interval data structure☆235Dec 5, 2024Updated last year
- Ritornello is a high fidelity control free ChIP-seq peak calling algorithm☆13Aug 23, 2018Updated 7 years ago
- A neural network framework for predicting the Hi-C chromatin interactions from megabase scale DNA sequence☆33Jan 19, 2026Updated 3 weeks ago
- ☆22Jun 5, 2017Updated 8 years ago
- Fluff is a Python package that contains several scripts to produce pretty, publication-quality figures for next-generation sequencing exp…☆71Apr 12, 2024Updated last year
- Enhancer-promoter interaction model☆10Nov 28, 2022Updated 3 years ago
- ☆10Jan 20, 2023Updated 3 years ago
- Cell type specific enhancer-gene predictions using ABC model (Fulco, Nasser et al, Nature Genetics 2019)☆246Jan 31, 2026Updated 2 weeks ago
- Toolkit for QTL mapping and meta-analysis.☆17May 24, 2022Updated 3 years ago
- DensityMap is perl tool for the visualization of features density along chromosomes☆18May 12, 2022Updated 3 years ago
- “When everything is connected to everything else, for better or worse, everything matters.” Bruce Mau☆189Jul 13, 2020Updated 5 years ago
- ChIP-seq peak calling with GC effects adjustment☆10Jul 5, 2018Updated 7 years ago
- Applying IDR analysis to Homer peaks.☆15May 8, 2020Updated 5 years ago
- Convolutional neural network analysis for predicting DNA sequence activity.☆267Sep 14, 2020Updated 5 years ago
- PARE: a computational method to Predict Active Regulatory Elements☆11Aug 8, 2025Updated 6 months ago
- Rcount: simple and flexible RNA-Seq read counting☆12May 19, 2022Updated 3 years ago
- Supplementary files for paper "Detection and removal of barcode swapping in single-cell RNAseq".☆11Jul 5, 2018Updated 7 years ago
- Single Cell Caller (SCcaller) - Identify single nucleotide variations (SNVs) from single cell sequencing data☆35Nov 27, 2024Updated last year
- A tool for bigWig files.☆118May 23, 2018Updated 7 years ago
- Differential analysis for ChIP-seq with biological replicates☆35Jan 5, 2022Updated 4 years ago
- Scripts for generating integrated dataset from publically available data sources to evaluate known genetic associations evidence of varyi…☆11May 5, 2020Updated 5 years ago
- a peak-calling and differential analysis tool for replicated ChIP-Seq data☆37May 18, 2022Updated 3 years ago
- Various Ideas for Confounder Adjustment in Regression☆24May 8, 2023Updated 2 years ago
- Deep learning for identifying cis-regulatory elements and other applications☆34Nov 21, 2016Updated 9 years ago
- Locus Overlap Analysis: Enrichment of Genomic Ranges☆79Sep 1, 2020Updated 5 years ago
- Glimma R package☆50Sep 2, 2024Updated last year
- MUltiScale enrIchment Calling for ChIP-Seq Datasets☆23Mar 14, 2019Updated 6 years ago
- A One-Click System for Analyzing Loop-Resolution Hi-C Experiments☆475Aug 31, 2025Updated 5 months ago
- An interactive Shiny web application for genomic interval enrichment analysis using LOLA.☆16Apr 17, 2022Updated 3 years ago
- Transcript assembly tool using multiple change-point inference to improve 3'UTR annotation☆13Dec 2, 2022Updated 3 years ago
- ☆14May 26, 2020Updated 5 years ago