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Search results for jupyter notebook single cell
jupyter-notebook
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single-cell
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43 search results found
Scgpt
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588
Single Cell Best Practices
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544
https://www.sc-best-practices.org
Scarches
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294
Reference mapping for single-cell genomics
Omicverse
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159
A python library for multi omics included bulk and single cell RNA-seq analysis.
Anndata2ri
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104
Convert between AnnData and SingleCellExperiment
Scatac Benchmarking
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92
Benchmarking computational single cell ATAC-seq methods
Chemcpa
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71
Code for "Predicting Cellular Responses to Novel Drug Perturbations at a Single-Cell Resolution", NeurIPS 2022.
Rapids_singlecell
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66
Rapids_singlecell: A GPU-accelerated tool for scRNA analysis. Offers seamless scverse compatibility for efficient single-cell data processing and analysis.
Via
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60
trajectory inference
Higashi
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60
single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, hypergraph
Scperturb
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56
scPerturb: A resource and a python/R tool for single-cell perturbation data
Scalex
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55
Online single-cell data integration through projecting heterogeneous datasets into a common cell-embedding space
Scfea
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47
single cell Flux Estimation Analysis (scFEA) Try the below web server!
Spicemix
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41
spatial transcriptome, single cell
Itclust
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39
Iterative transfer learning with neural network improves clustering and cell type classification in single-cell RNA-seq analysis
Crosstalker
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39
R package to do the Ligand Receptor Analysis Visualization
Randomly
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33
A Library for Denoising Single-Cell Data with Random Matrix Theory
Babel
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32
Deep learning model for single-cell inference of multi-omic profiles from a single input modality.
Vitessce Python
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28
Python API and Jupyter widget for Vitessce
Scib Reproducibility
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25
Additional code and analysis from the single-cell integration benchmarking project
Scasat
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24
Scasat is a single cell ATAC-seq preprocessing and analysis pipeline
Fava
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23
Functional Associations using Variational Autoencoders
Scdeepcluster_pytorch
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22
Pytorch implementation of scDeepCluster for Single Cell RNA-seq data
Cosg
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22
Accurate and fast cell marker gene identification with COSG
Mario Py
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21
MARIO: single-cell proteomic data matching and integration using both shared and distinct features
Mellon
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20
Non-parametric density inference for single-cell analysis.
Cshl Singlecell 2017
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20
Single Cell Analysis course at Cold Spring Harbor Laboratory 2017
Pyliger
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19
Python package for integrating and analyzing multiple single-cell datasets (A Python version of LIGER)
Devcellpy
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18
devCellPy is a Python package designed for hierarchical multilayered classification of cells based on single-cell RNA-sequencing.
Torch Adata
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17
Create PyTorch Datasets from AnnData
Veloae
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17
Low-dimensional Projection of Single Cell Velocity
Sisua
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16
SemI-SUpervised generative Autoencoder models for single cell data
Schlapers
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14
Code to run the scHLApers pipeline for personalized single-cell HLA quantification
Uncurl_python
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14
UNCURL is a tool for single cell RNA-seq data analysis.
Topicvelo
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11
TopicVelo: Dissection and Integration of Bursty Transcriptional Dynamics for Complex Systems
Scorect
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11
Automated Cell Type Annotation
Gear
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10
The gEAR Portal was created as a data archive and viewer for gene expression data including microarrays, bulk RNA-Seq, single-cell RNA-Seq and more.
Transmorph
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10
Computational framework for dataset integration
Fatecompass
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8
Single Cell Experiments
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7
Experiments to run single cell analyses efficiently at scale using Zarr, anndata, Scanpy, and Apache Spark
Tirp
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7
code repository for Lagattuta et al. "Repertoire analyses reveal T cell receptor sequence features that influence T cell fate." Nat. Imm. (2022)
Fast Higashi
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6
single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, tensor decomposition
Pyscnet
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6
A python package for single cell network analysis
Nvtk
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6
NvTK (NvwaToolKit), is a systemmatic and easy-using deep learning software in single-cell genomics.
Scghost
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6
single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, genome subcompartment
Neuroblastoma
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6
Single-cell transcriptomics and epigenomics unravel the role of monocytes in neuroblastoma bone marrow metastasis
Redeemr
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5
R package for ReDeeM: single-cell Regulatory multi-omics with Deep Mitochondrial mutation profiling.
Vitessce Python Tutorial
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5
Notebooks for HuBMAP tutorial session (January 2023)
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