Alternatives and similar repositories for scImpute:

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

• mohuangx / SAVER
  Single-cell RNA-seq Gene Expression Recovery
  ☆110Updated 4 months ago
• KlugerLab / ALRA
  Imputation method for scRNA-seq based on low-rank approximation
  ☆74Updated last year
• LuyiTian / sc_mixology
  This contains the dataset for comparing scRNA-seq analysis methods
  ☆92Updated 4 years ago
• aertslab / cisTopic
  cisTopic: Probabilistic modelling of cis-regulatory topics from single cell epigenomics data
  ☆139Updated last year
• AllonMKlein / scrublet
  Detect doublets in single-cell RNA-seq data
  ☆85Updated 5 years ago
• hemberg-lab / scmap
  A tool for unsupervised projection of single cell RNA-seq data
  ☆95Updated 4 years ago
• Hoohm / CITE-seq-Count
  A tool that allows to get UMI counts from a single cell protein assay
  ☆82Updated 9 months ago
• immunogenomics / LISI
  Methods to compute Local Inverse Simpson's Index (LISI)
  ☆61Updated 3 years ago
• cellgeni / batchbench
  ☆46Updated 2 years ago
• SCCAF / sccaf
  Single-Cell Clustering Assessment Framework
  ☆101Updated last year
• velocyto-team / velocyto-notebooks
  ☆55Updated 6 years ago
• MarioniLab / MNN2017
  Code for the MNN manuscript figures
  ☆50Updated 6 years ago
• JinmiaoChenLab / Batch-effect-removal-benchmarking
  A benchmark of batch-effect correction methods for single-cell RNA sequencing data
  ☆74Updated 3 years ago
• dpeerlab / magic
  MAGIC - imputation and de-noising single-cell RNA seq data sets
  ☆27Updated 5 years ago
• GregorySchwartz / too-many-cells
  Cluster single cells and analyze cell clade relationships with colorful visualizations.
  ☆110Updated 5 months ago
• theislab / AutoGeneS
  ☆59Updated 3 years ago
• asncd / MIMOSCA
  A repository for the design and analysis of pooled single cell RNA-seq perturbation experiments.
  ☆86Updated 5 years ago
• rajewsky-lab / novosparc
  ☆127Updated last year
• gao-lab / Cell_BLAST
  A BLAST-like toolkit for large-scale scRNA-seq data querying and annotation.
  ☆91Updated 9 months ago
• zhangzlab / covid_balf
  R script for the covid balf data analysis
  ☆65Updated 4 years ago
• wukevin / babel
  Deep learning model for single-cell inference of multi-omic profiles from a single input modality.
  ☆41Updated last year
• jsxlei / SCALE
  Single-cell ATAC-seq analysis via Latent feature Extraction
  ☆102Updated last year
• hmatsu1226 / SCODE
  SCODE : an efficient regulatory network inference algorithm from single-cell RNA-Seq during differentiation
  ☆43Updated 5 years ago
• cistrome / MIRA
  Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.
  ☆61Updated last year
• 10XGenomics / single-cell-3prime-paper
  ☆85Updated 4 years ago
• MarioniLab / EmbryoTimecourse2018
  Data and analysis scripts for our Embryo Timecourse paper.
  ☆68Updated 5 years ago
• drieslab / awesome-spatial-data-analysis
  Awesome list of tools and methods to perform spatial transcriptomic data analysis.
  ☆40Updated 3 years ago
• crazyhottommy / scclusteval
  Single Cell Cluster Evaluation
  ☆94Updated 3 years ago
• GreenleafLab / 10x-scATAC-2019
  Publication Page for Satpathy*, Granja* et al 2019
  ☆94Updated 4 years ago
• brianhie / geosketch
  Geometry-preserving random sampling
  ☆81Updated 5 months ago