9 results found Sort:

scverse
scvi-tools scverse
366
1.3k
bsd-3-clause
26
Deep probabilistic analysis of single-cell and spatial omics data
scverse cite-seq scrna-seq deep-learning human-cell-atlas variational-bayes single-cell-rna-seq single-cell-genomics deep-generative-model variational-autoencoder
Created 2017-09-06
4,123 commits to main branch, last one 5 days ago
scverse
muon scverse
31
222
bsd-3-clause
14
muon is a multimodal omics Python framework
muon mudata scanpy anndata scverse cite-seq scrna-seq scatac-seq multi-omics multimodal-data multimodal-omics-analysis
Created 2020-02-03
586 commits to main branch, last one about a month ago
kanaverse
kana kanaverse
12
142
mit
6
Single cell analysis in the browser
rna-seq cite-seq single-cell webassembly bioinformatics interactive-analysis exploratory-data-analysis interactive-visualizations
Created 2021-12-02
321 commits to master branch, last one 8 months ago
rezakj
iCellR rezakj
19
121
unknown
13
Single (i) Cell R package (iCellR) is an interactive R package to work with high-throughput single cell sequencing technologies (i.e scRNA-seq, scVDJ-seq, scATAC-seq, CITE-Seq and Spatial Transcriptom...
3d umap icellr dropout cite-seq scrna-seq scvdj-seq clustering imputation pseudotime 10xgenomics normalization diffusion-maps intractive-graph batch-normalization clustering-algorithm singel-cell-sequencing cell-type-classification
Created 2018-12-11
84 commits to master branch, last one 5 months ago
sanderlab
scPerturb sanderlab
6
109
other
5
scPerturb: A resource and a python/R tool for single-cell perturbation data
r python science cite-seq database scrna-seq scatac-seq statistics single-cell perturbation
Created 2022-08-12
161 commits to master branch, last one 3 months ago
parashardhapola
scarf parashardhapola
12
98
bsd-3-clause
5
Toolkit for highly memory efficient analysis of single-cell RNA-Seq, scATAC-Seq and CITE-Seq data. Analyze atlas scale datasets with millions of cells on laptop.
tsne umap big-data cite-seq genomics scrna-seq clustering multiomics pseudotime scatac-seq gene-modules bioinformatics graph-analytics memory-efficient dimension-reduction single-cell-rna-seq single-cell-atac-seq single-cell-genomics scalable-data-analysis differential-expression
Created 2020-05-07
1,024 commits to master branch, last one 4 days ago
alexisvdb
singleCellHaystack alexisvdb
9
79
other
5
Finding surprising needles (=genes) in haystacks (=single cell transcriptome data).
r cite-seq pseudotime scatac-seq single-cell bioinformatics transcriptomics spatial-proteomics spatial-transcriptomics
Created 2019-02-13
446 commits to master branch, last one 11 months ago
niaid
dsb niaid
13
64
other
10
Normalize CITEseq Data
cite-seq niaid-tsang-lab
Created 2020-01-21
189 commits to master branch, last one 6 months ago
Novartis
scar Novartis
5
50
unknown
8
scAR (single-cell Ambient Remover) is a deep learning model for removal of the ambient signals in droplet-based single cell omics
pytorch cite-seq crispr-screen generative-model machine-learning denoising-algorithm single-cell-rna-seq variational-autoencoder probabilistic-graphical-models
Created 2022-03-15
395 commits to main branch, last one 4 months ago