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DeepCistrome
DeepCistrome PublicThis repository contains code and scripts to reproduce the work on multi-label classifiers for DNA-TF binding
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deepCRE_reimplemented
deepCRE_reimplemented PublicThis repo reimplements deepCRE using tensorflow 2.10.0 and SHAP. Thus replacing tensorflow 1.14.0 and DeepLIFT
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2025_Plant2030
2025_Plant2030 PublicMaterials for the Plant2030 Intro to Bioinformatics Workshop at the IPK Gatersleben
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Repositories
- deepCRE_reimplemented Public
This repo reimplements deepCRE using tensorflow 2.10.0 and SHAP. Thus replacing tensorflow 1.14.0 and DeepLIFT
- deepCRE_toolkit_publication_code_and_data Public
This repository contains the code and source data to generate figures and tables for Peleke et al, 2026 "Accessible Deep Learning for Plant Biology: Predicting Gene Expression from Regulatory DNA with deepCRE"
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- tomato-rna-meta Public
Data, code, and results for our paper Identification of core, conditional and crosstalk components of tomato heat stress response using integrative transcriptomics and orthology (https://doi.org/10.21203/rs.3.rs-4337825/v1). If you use any of our code or results in a scientific publication, we would be grateful if you cite the paper.
- DeepCistrome Public
This repository contains code and scripts to reproduce the work on multi-label classifiers for DNA-TF binding
- rnaseq-mapper Public
- evo_result_analysis Public
Repository for the analysis of the results from the Evolutionary Algorithm
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