idekerlab / MuSIC

Related projects ⓘ

Alternatives and complementary repositories for MuSIC

• carpenter-singh-lab / 2022_Haghighi_NatureMethods
  High-Dimensional Gene Expression and Morphology Profiles of Cells across 28,000 Genetic and Chemical Perturbations
  ☆47Updated last year
• sanderlab / CellBox
  CellBox: Interpretable Machine Learning for Perturbation Biology
  ☆54Updated last year
• DennisGankin / species-aware-DNA-LM
  Species-aware DNA language modeling
  ☆17Updated last year
• theislab / prophet
  ☆25Updated 3 months ago
• autosome-ru / LegNet
  accurate prediction of promoter activity and variant effects from massive parallel reporter assays
  ☆29Updated last month
• bowang-lab / BIONIC
  Biological Network Integration using Convolutions
  ☆59Updated 10 months ago
• cytomining / pycytominer
  Python package for processing image-based profiling data
  ☆80Updated this week
• FunctionLab / tapioca
  a framework for predicting global protein-protein interaction networks from dynamic mass spec data
  ☆23Updated 8 months ago
• saezlab / corneto
  Unified knowledge-driven network inference from omics data
  ☆25Updated 2 weeks ago
• broadinstitute / lincs-cell-painting
  Processed Cell Painting Data for the LINCS Drug Repurposing Project
  ☆25Updated 2 years ago
• scverse / pytometry
  Flow & mass cytometry analytics.
  ☆42Updated this week
• fanzheng10 / CliXO-1.0
  CliXO algorithm re-implemented
  ☆14Updated 3 years ago
• uio-bmi / immuneML
  immuneML is a platform for machine learning analysis of adaptive immune receptor repertoire data.
  ☆62Updated this week
• BIMSBbioinfo / maui
  Multi-omics Autoencoder Integration: Deep learning-based heterogenous data analysis toolkit
  ☆48Updated last year
• Genentech / decima
  Decima is a Python library to train sequence models on single-cell RNA-seq data.
  ☆19Updated last month
• netZoo / netbooks
  Netbooks is a JupyterHub catalog of use cases in gene regulatory network inference using netZoo methods..
  ☆39Updated this week
• evocellnet / funscoR
  R package for functionally scoring phosphorylation sites
  ☆19Updated 5 years ago
• sjgosai / boda2
  Computational Optimization of DNA Activity (CODA)
  ☆41Updated 2 months ago
• scverse / mudata
  Multimodal Data (.h5mu) implementation for Python
  ☆78Updated last month
• carpenter-singh-lab / 2023_Cimini_NatureProtocols
  Optimizing the Cell Painting assay for image-based profiling
  ☆19Updated last year
• Genentech / regLM
  Toolkit for training hyenaDNA-based autoregressive language models on DNA sequences.
  ☆29Updated last month
• cole-trapnell-lab / sci-plex
  repository containing analysis scripts and auxiliary files
  ☆30Updated 4 years ago
• MannLabs / structuremap_analysis
  Analysis workflow for investigating the structural context of PTMs
  ☆11Updated 10 months ago
• 1edv / evolution
  This repository contains the code for our manuscript - 'The evolution, evolvability, and engineering gene regulatory DNA'
  ☆93Updated last year
• johli / seqprop
  Stochastic Sequence Propagation - A Keras Model for optimizing DNA, RNA and protein sequences based on a predictor
  ☆42Updated 3 months ago
• timyerg / venny4py
  ☆15Updated 2 months ago
• dohlee / chromoformer
  The official code implementation for Chromoformer in PyTorch. (Lee et al., Nature Communications. 2022)
  ☆34Updated last year
• ratschlab / pmvae
  Code for pmVAE model, seen in ICML CompBio '21
  ☆12Updated 7 months ago
• broadchenf / Slideseq
  ☆12Updated 5 years ago
• mcvickerlab / GenVarLoader
  Pipeline for efficient genomic data processing.
  ☆20Updated 2 months ago