Alternatives and similar repositories for singlecelldb

Users that are interested in singlecelldb are comparing it to the libraries listed below

• gao-lab / Cell_BLAST
  A BLAST-like toolkit for large-scale scRNA-seq data querying and annotation.
  ☆94Updated last year
• jsxlei / SCALE
  Single-cell ATAC-seq analysis via Latent feature Extraction
  ☆103Updated 2 years ago
• tabdelaal / scRNAseq_Benchmark
  Bench-marking classification tools for scRNA-seq data
  ☆189Updated 3 years ago
• pinellolab / scATAC-benchmarking
  Benchmarking computational single cell ATAC-seq methods
  ☆184Updated 5 years ago
• saezlab / dorothea
  R package to access DoRothEA's regulons
  ☆153Updated last year
• LewisLabUCSD / Ligand-Receptor-Pairs
  Compendium of available lists of ligand-receptor pairs and surface-secreted protein interactions.
  ☆147Updated 2 years ago
• KrishnaswamyLab / SingleCellWorkshop
  ☆96Updated 4 years ago
• rajewsky-lab / novosparc
  ☆131Updated 2 years ago
• aertslab / cisTopic
  cisTopic: Probabilistic modelling of cis-regulatory topics from single cell epigenomics data
  ☆143Updated last year
• zhangzlab / covid_balf
  R script for the covid balf data analysis
  ☆65Updated 5 years ago
• ZJUFanLab / scDeepSort
  Cell-type Annotation for Single-cell Transcriptomics using Deep Learning with a Weighted Graph Neural Network
  ☆106Updated 2 years ago
• KevinMenden / scaden
  Deep Learning based cell composition analysis with Scaden.
  ☆87Updated last year
• CahanLab / singleCellNet
  SingleCellNet: classify single cells across species and platforms
  ☆139Updated 2 years ago
• asncd / MIMOSCA
  A repository for the design and analysis of pooled single cell RNA-seq perturbation experiments.
  ☆97Updated 6 years ago
• eleozzr / desc
  Deep Embedding for Single-cell Clustering
  ☆89Updated last year
• SCCAF / sccaf
  Single-Cell Clustering Assessment Framework
  ☆107Updated 2 years ago
• imsb-uke / scGAN
  Realistic in silico generation and augmentation of single cell RNA-seq data using Generative Adversarial Neural Networks
  ☆88Updated last year
• phbradley / conga
  Clonotype Neighbor Graph Analysis
  ☆93Updated 4 months ago
• czbiohub-sf / tabula-muris-senis
  Tabula Muris Senis
  ☆107Updated 2 years ago
• Teichlab / SpatialDE
  Test genes for Spatial Variation
  ☆179Updated last year
• ZJUFanLab / bulk2space
  a spatial deconvolution method based on deep learning frameworks, which converts bulk transcriptomes into spatially resolved single-cell …
  ☆129Updated 2 years ago
• wukevin / babel
  Deep learning model for single-cell inference of multi-omic profiles from a single input modality.
  ☆46Updated 2 years ago
• theislab / scib-pipeline
  Snakemake pipeline that works with the scIB package to benchmark data integration methods.
  ☆80Updated 11 months ago
• JinmiaoChenLab / Batch-effect-removal-benchmarking
  A benchmark of batch-effect correction methods for single-cell RNA sequencing data
  ☆79Updated 3 years ago
• wguo-research / scCancer
  A package for automated processing of single cell RNA-seq data in cancer
  ☆114Updated 4 months ago
• GregorySchwartz / too-many-cells
  Cluster single cells and analyze cell clade relationships with colorful visualizations.
  ☆114Updated last year
• mohuangx / SAVER
  Single-cell RNA-seq Gene Expression Recovery
  ☆112Updated last year
• scverse / scanpy_usage
  Scanpy use cases.
  ☆88Updated 5 years ago
• kharchenkolab / conos
  R package for the joint analysis of multiple single-cell RNA-seq datasets
  ☆217Updated last year
• colomemaria / epiScanpy
  Episcanpy: Epigenomics Single Cell Analysis in Python
  ☆150Updated last year