FunctionLab / ExPecto
predicting expression effects of human genome variants ab initio from sequence
☆127Updated last month
Alternatives and similar repositories for ExPecto:
Users that are interested in ExPecto are comparing it to the libraries listed below
- Cell type specific enhancer-gene predictions using ABC model (Fulco, Nasser et al, Nature Genetics 2019)☆216Updated this week
- Bias factorized, base-resolution deep learning models of chromatin accessibility (chromBPNet)☆146Updated last month
- Toolkit to train base-resolution deep neural networks on functional genomics data and to interpret them☆151Updated 7 months ago
- code to run sei and obtain sei and sequence class predictions☆99Updated 2 years ago
- A repository for the design and analysis of pooled single cell RNA-seq perturbation experiments.☆87Updated 5 years ago
- A python extension for quick access to bigWig and bigBed files☆226Updated 2 months ago
- deep learning-inspired explainable sequence model for transcription initiation☆93Updated 2 weeks ago
- Benchmarking computational single cell ATAC-seq methods☆182Updated 4 years ago
- 📚 Tools and databases for analyzing HLA and VDJ genes.☆219Updated 3 months ago
- ☆90Updated 4 years ago
- A (continuously updated) collection of references to Hi-C data. Predominantly human/mouse Hi-C data, with replicates.☆183Updated 2 months ago
- C.Origami, a prediction and screening framework for cell type-specific 3D chromatin structure.☆72Updated 8 months ago
- [REPLACED by https://github.com/antigenomics/mirpy] Post-analysis of immune repertoire sequencing data☆134Updated 10 months ago
- What you need to process the Quarterly DepMap-Omics releases from Terra☆114Updated this week
- Bench-marking classification tools for scRNA-seq data☆185Updated 2 years ago
- TCR and BCR assembly from RNA-seq data☆298Updated last week
- R package to access DoRothEA's regulons☆142Updated last year
- Code and annotations for the Tabula Muris single-cell transcriptomic dataset.☆190Updated 2 years ago
- Transcription factor Occupancy prediction By Investigation of ATAC-seq Signal☆209Updated last month
- Episcanpy: Epigenomics Single Cell Analysis in Python☆142Updated 3 months ago
- A continually expanding collection of cancer genomics notes and data☆102Updated 4 months ago
- Deep-learning Augmented RNA-seq analysis of Transcript Splicing☆111Updated last year
- T/B cell receptor sequencing analysis notes☆245Updated 3 months ago
- Grouping of Lymphocyte Interactions by Paratope Hotspots☆91Updated 4 years ago
- TF MOtif Discovery from Importance SCOres☆134Updated last year
- Application for making ENCODE Blacklists☆295Updated 3 years ago
- A scanpy extension to analyse single-cell TCR and BCR data.☆226Updated this week
- An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.☆161Updated last year
- Porting DESeq2 into python via rpy2☆68Updated last year
- GeneWalk identifies relevant gene functions for a biological context using network representation learning☆130Updated 7 months ago