Neuroinformagician

Neuroinformagician's Stars

• shaoqiangzhang/DeepScena

  Deep clustering of scRNA-seq data

  Language:Python42

• mousepixels/sanbomics_scripts

  scripts and notebooks from sanbomics

  Language:Jupyter Notebook354133

• genome-sci/python_bioinfo_2023

  Language:HTML3

• theislab/single-cell-tutorial

  Single cell current best practices tutorial case study for the paper:Luecken and Theis, "Current best practices in single-cell RNA-seq analysis: a tutorial"

  Language:Jupyter Notebook1.4k458

• grst/bd_rhapsody_velocyto

  Nextflow workflow to run velocyto.py on BD Rhapsody BAM files

  Language:Nextflow52

• apple/ml-ferret

  Language:Python8.4k496

• YosefLab/mrvi_archive

  Multi-resolution Variational Inference

  Language:Python226

• minoda-lab/universc

  UniverSC: a flexible cross-platform single-cell data processing pipeline

  Language:Shell427

• scverse/scirpy

  A scanpy extension to analyse single-cell TCR and BCR data.

  Language:Python21834

• mdozmorov/scRNA-seq_notes

  A list of scRNA-seq analysis tools

  Language:R628146

• crazyhottommy/getting-started-with-genomics-tools-and-resources

  Unix, R and python tools for genomics and data science

  Language:Shell1.2k351

• rikenbit/scTensor

  R package for detection of cell-cell interaction using Non-negative Tensor Decomposition

  Language:R326

• smorabit/hdWGCNA

  High dimensional weighted gene co-expression network analysis

  Language:R35635

• pytorch/pytorch

  Tensors and Dynamic neural networks in Python with strong GPU acceleration

  Language:Python83.6k22.5k

• single-cell-genetics/cellsnp-lite

  Efficient genotyping bi-allelic SNPs on single cells

  Language:C13111

• gregsadetsky/sagittarius

  A GPT-4/Gemini Voice/Video Exploration Tool

  Language:TypeScript68393

• single-cell-genetics/cellSNP

  Pileup biallelic SNPs from single-cell and bulk RNA-seq data

  Language:Python7411

• cortes-ciriano-lab/SComatic

  A tool for detecting somatic variants in single cell data

  Language:Python16427

• crazyhottommy/scRNAseq-analysis-notes

  scRNAseq analysis notes from Ming Tang

  637155

• Teichlab/celltypist

  A tool for semi-automatic cell type classification

  Language:Python29146

• ml-explore/mlx-examples

  Examples in the MLX framework

  Language:Python6.1k870

• ml-explore/mlx

  MLX: An array framework for Apple silicon

  Language:C++17k984

• ml-explore/mlx-data

  Efficient framework-agnostic data loading

  Language:C++36140

• HorvathLab/NGS

  Next-Gen Sequencing tools from the Horvath Lab

  Language:Python3915

• princethewinner/FiRE

  Language:C++248

• seandavi/awesome-single-cell

  Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.

  3.2k985

• ggerganov/whisper.cpp

  Port of OpenAI's Whisper model in C/C++

  Language:C++35.4k3.6k

• molgenis/1M-cells

  This is the repository which contains the code that was used to generate the results and figures of the “Single-cell RNA-sequencing reveals widespread personalized, context-specific gene expression regulation in immune cells” paper (https://doi.org/10.1038/s41467-022-30893-5)

  Language:R10

• XuegongLab/SCeQTL

  Language:R158

• horsedayday/eQTLsingle

  Language:R132