sjgosai / boda2
Computational Optimization of DNA Activity (CODA)
☆32Updated last month
Related projects ⓘ
Alternatives and complementary repositories for boda2
- code to run EPInformer for gene expression prediction and gene-enhancer links prioritization☆30Updated this week
- ☆16Updated 7 months ago
- Knowledge-primed neural networks☆34Updated last year
- TCRconv is a deep learning model for predicting recognition between T cell receptors and epitopes. It uses protBERT embeddings for the TC…☆22Updated 2 years ago
- Comparing performance across many methodological dimensions among tools that predict RNA after TF knockdowns and overexpression.☆16Updated this week
- Functional Embedding of Gene Signatures☆36Updated 8 months ago
- Polygraph evaluates and compares groups of nucleic acid sequences based on their sequence and functional content for effective design of …☆27Updated 6 months ago
- Pipeline for efficient genomic data processing.☆19Updated 2 months ago
- ☆12Updated this week
- a framework for predicting global protein-protein interaction networks from dynamic mass spec data☆23Updated 7 months ago
- Diffusion model for gene regulatory network inference.☆14Updated 5 months ago
- repository containing analysis scripts and auxiliary files☆30Updated 4 years ago
- Toolkit for training hyenaDNA-based autoregressive language models on DNA sequences.☆28Updated last month
- ☆15Updated 2 weeks ago
- Toolset for training quantitative sequence to function models.☆20Updated 7 months ago
- ☆44Updated last month
- ExplaiNN: interpretable and transparent neural networks for genomics☆43Updated last year
- ☆38Updated 11 months ago
- Deep Learning the T Cell Receptor Binding Specificity of Neoantigen☆76Updated 2 years ago
- Code for "Optimizing 5’UTRs for mRNA-delivered gene editing using deep learning"☆16Updated 4 months ago
- Decima is a Python library to train sequence models on single-cell RNA-seq data.☆18Updated last month
- ☆17Updated last year
- ☆14Updated 2 months ago
- Transcription Factor Binding Prediction from ATAC-seq and scATAC-seq with Deep Neural Networks☆26Updated 3 weeks ago
- ☆22Updated 7 months ago
- Scripts for building computational models of gene regulation with tensorflow☆10Updated 4 years ago
- ☆66Updated last year
- accurate prediction of promoter activity and variant effects from massive parallel reporter assays☆28Updated 2 weeks ago
- ACTIONet single-cell analysis framework☆36Updated last month
- Scripts and datasets to reproduce the experiment of the paper "Exploring non-coding RNA functions with deep learning tools"☆11Updated 3 years ago