jmschrei / tangermemeLinks
Biological sequence analysis for the modern age.
☆231Updated 2 weeks ago
Alternatives and similar repositories for tangermeme
Users that are interested in tangermeme are comparing it to the libraries listed below
Sorting:
- RNA-seq prediction with deep convolutional neural networks.☆185Updated 2 months ago
- Toolkit to train base-resolution deep neural networks on functional genomics data and to interpret them☆160Updated last year
- Bias factorized, base-resolution deep learning models of chromatin accessibility (chromBPNet)☆177Updated 3 weeks ago
- deep learning-inspired explainable sequence model for transcription initiation☆97Updated 5 months ago
- gReLU is a python library to train, interpret, and apply deep learning models to DNA sequences.☆269Updated this week
- A lite implementation of tfmodisco, a motif discovery algorithm for genomics experiments.☆83Updated last month
- TF MOtif Discovery from Importance SCOres☆145Updated last year
- code to run sei and obtain sei and sequence class predictions☆106Updated 2 years ago
- C.Origami, a prediction and screening framework for cell type-specific 3D chromatin structure.☆77Updated last year
- Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.☆68Updated last month
- ☆31Updated 6 months ago
- Python library for array programming on biological datasets. Documentation available at: https://bionumpy.github.io/bionumpy/☆283Updated last month
- This repository hosts a minimal version of a Python API for BPNet.☆47Updated 3 weeks ago
- predicting expression effects of human genome variants ab initio from sequence☆128Updated 6 months ago
- A python extension for quick access to bigWig and bigBed files☆233Updated 6 months ago
- 📚 Tools and databases for analyzing HLA and VDJ genes.☆228Updated 3 months ago
- Deep learning model built to quantitatively predict the activities of developmental and housekeeping enhancers from DNA sequence in Droso…☆64Updated 2 years ago
- code to run EPInformer for gene expression prediction and gene-enhancer links prioritization☆44Updated 8 months ago
- Cell type specific enhancer-gene predictions using ABC model (Fulco, Nasser et al, Nature Genetics 2019)☆234Updated last month
- Jupyter notebook based genomic data visualization toolkit.☆246Updated 4 months ago
- Machine learning methods for DNA sequence analysis.☆51Updated last month
- A scanpy extension to analyse single-cell TCR and BCR data.☆236Updated this week
- Computational Optimization of DNA Activity (CODA)☆60Updated 4 months ago
- DeepSomatic is an analysis pipeline that uses a deep neural network to call somatic variants from tumor-normal and tumor-only sequencing …☆174Updated 2 months ago
- PyTorch implementation of Basenji2.☆16Updated 3 months ago
- ExplaiNN: interpretable and transparent neural networks for genomics☆49Updated 4 months ago
- A (continuously updated) collection of references to Hi-C data. Predominantly human/mouse Hi-C data, with replicates.☆191Updated last month
- sequence-based prediction of multiscale genome structure from kilobase to whole-chromosome scale☆89Updated 5 months ago
- Sequence-based Modeling of single-cell ATAC-seq using Convolutional Neural Networks.☆97Updated 6 months ago
- muon is a multimodal omics Python framework☆240Updated 5 months ago