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1. imVelo imVelo Public

   Interpretable RNA velocity estimation in single-cell trajectories using deep learning and prior biological knowledge.

   Jupyter Notebook 1

2. VeloFormer VeloFormer Public

   Extending imVelo to multi-omic and multi-trajectory systems.

   Jupyter Notebook

3. Geneformer_Cell_Type_Annotation Geneformer_Cell_Type_Annotation Public

   A structured pipeline for fine tuning a foundation model (Geneformer) for the task of cell type classification using scRNAseq data

   Python

4. Multiomics_Integration Multiomics_Integration Public

   Code extracts from my internship at Theis Lab.

   Jupyter Notebook

5. Gene_Expression_Neural_ODEs Gene_Expression_Neural_ODEs Public

   Simple modelling of scRNAseq time dependent gene distributions with neural ordinary differential equations

   Jupyter Notebook

6. Local_Sequence_Alignment_Tool Local_Sequence_Alignment_Tool Public

   Tool for exact local alignment of DNA sequences (string pairs) under a custom scoring system - Smith-Waterman Implementation

   Python