FunctionLab / ExPecto
predicting expression effects of human genome variants ab initio from sequence
☆126Updated 3 weeks ago
Alternatives and similar repositories for ExPecto:
Users that are interested in ExPecto are comparing it to the libraries listed below
- Deep-learning Augmented RNA-seq analysis of Transcript Splicing☆111Updated last year
- Toolkit to train base-resolution deep neural networks on functional genomics data and to interpret them☆150Updated 6 months ago
- ☆91Updated 4 years ago
- code to run sei and obtain sei and sequence class predictions☆97Updated 2 years ago
- Bias factorized, base-resolution deep learning models of chromatin accessibility (chromBPNet)☆140Updated last week
- A neural network framework for predicting the Hi-C chromatin interactions from megabase scale DNA sequence☆33Updated 9 months ago
- What you need to process the Quarterly DepMap-Omics releases from Terra☆114Updated last week
- Cell type specific enhancer-gene predictions using ABC model (Fulco, Nasser et al, Nature Genetics 2019)☆213Updated 2 weeks ago
- [REPLACED by https://github.com/antigenomics/mirpy] Post-analysis of immune repertoire sequencing data☆133Updated 8 months ago
- A python extension for quick access to bigWig and bigBed files☆226Updated last month
- A repository for the design and analysis of pooled single cell RNA-seq perturbation experiments.☆87Updated 5 years ago
- A (continuously updated) collection of references to Hi-C data. Predominantly human/mouse Hi-C data, with replicates.☆181Updated last month
- Neoantigens prediction pipeline for multi- or single-region vcf files using ANNOVAR and netMHCpan.☆110Updated 5 months ago
- TraCeR - reconstruction of T cell receptor sequences from single-cell RNAseq data☆126Updated last year
- deep residual neural network for classifying the pathogenicity of missense mutations.☆114Updated 3 years ago
- Pangolin is a deep-learning method for predicting splice site strengths.☆66Updated 8 months ago
- Deep Learning Methods for Parsing T-Cell Receptor Sequencing (TCRSeq) Data☆115Updated 2 years ago
- Reproducible bioinformatics pipelines in python. Import any Unix tool/command in python.☆82Updated 3 years ago
- A Systematic and Dynamic Pipeline for Single-Cell RNA Sequencing Analysis☆106Updated last year
- Sequence-based Modeling of single-cell ATAC-seq using Convolutional Neural Networks.☆99Updated last month
- Fast and accurate in silico inference of HLA genotypes from RNA-seq☆123Updated 6 months ago
- C.Origami, a prediction and screening framework for cell type-specific 3D chromatin structure.☆69Updated 7 months ago
- ☆37Updated 2 years ago
- deep learning-inspired explainable sequence model for transcription initiation☆93Updated 3 months ago
- ☆83Updated 4 years ago
- Grouping of Lymphocyte Interactions by Paratope Hotspots☆91Updated 4 years ago
- Episcanpy: Epigenomics Single Cell Analysis in Python☆142Updated 2 months ago
- Estimating tumor fraction in cell-free DNA from ultra-low-pass whole genome sequencing.☆175Updated 11 months ago
- RNA-seq prediction with deep convolutional neural networks.☆121Updated 2 months ago
- A Python package for handling and visualizing GWAS summary statistics. https://cloufield.github.io/gwaslab/☆179Updated this week