Alternatives and similar repositories for scMultiome_analysis_vignette

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

• Teichlab / cellhint
  A tool for semi-automatic cell type harmonization and integration
  ☆107Updated 2 months ago
• LocasaleLab / Single-Cell-Metabolic-Landscape
  Pipeline for exploring metebolic heterogeneity at single-cell resolution
  ☆73Updated 5 years ago
• swaruplab / Single-nuclei-epigenomic-and-transcriptomic-landscape-in-Alzheimer-disease
  Single-nuclei RNA-seq and ATAC-seq in Alzheimer's disease
  ☆93Updated 3 years ago
• Japrin / STARTRAC
  STARTRAC(Single T-cell Analysis by Rna-seq and Tcr TRACking)
  ☆105Updated last month
• jfnavarro / st_pipeline
  ST Pipeline contains the tools and scripts needed to process and analyze the raw files generated with the Spatial Transcriptomics method …
  ☆84Updated 3 months ago
• TheHumphreysLab / plot1cell
  ☆110Updated 3 months ago
• BlishLab / scriabin
  Analysis of cell-cell communication at single-cell resolution
  ☆102Updated 9 months ago
• MGI-tech-bioinformatics / DNBelab_C_Series_HT_scRNA-analysis-software
  An open source and flexible pipeline to analysis high-throughput DNBelab C Series single-cell RNA datasets
  ☆97Updated 2 months ago
• cellgeni / STARsolo
  wrapper scripts for convenient STARsolo processing of 10X and other scRNA-seq
  ☆58Updated 2 weeks ago
• tiroshlab / 3ca
  Code for reproducing the analysis in Gavish et al. "The transcriptional hallmarks of intra-tumor heterogeneity across a thousand tumors".
  ☆116Updated 9 months ago
• carmonalab / STACAS
  R package for semi-supervised single-cell data integration
  ☆82Updated last month
• saezlab / visium_heart
  Spatial transcriptomics of heart tissue
  ☆87Updated last year
• matanhofree / crc-immune-hubs
  Principal analysis code used in for analysis of single cell RNAseq of primary untreated colon cancer. As described in: "Spatially organiz…
  ☆39Updated 3 years ago
• AntonioDeFalco / SCEVAN
  R package that automatically classifies the cells in the scRNA data by segregating non-malignant cells of tumor microenviroment from the …
  ☆107Updated 2 months ago
• ShellyCoder / cellcall
  inferring cell-cell communication from scRNA-seq of ligand-receptor
  ☆82Updated last year
• immunogenomics / LISI
  Methods to compute Local Inverse Simpson's Index (LISI)
  ☆62Updated 3 years ago
• digitalcytometry / cytospace
  CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data
  ☆129Updated 4 months ago
• Dragonlongzhilin / RenalTumor
  Single-cell multi-omics analysis reveals regulatory programs in clear cell renal cell carcinoma
  ☆78Updated 7 months ago
• winstonbecker / scCRC_continuum
  ☆42Updated 2 years ago
• BostonGene / MFP
  Mollecular Functional Portraits
  ☆41Updated last year
• aertslab / pycisTopic
  pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.
  ☆68Updated this week
• jackbibby1 / SCPA
  R package for pathway analysis in scRNA-seq data
  ☆73Updated 10 months ago
• rpolicastro / scProportionTest
  ☆68Updated last year
• RausellLab / CelliD
  Gene signature extraction and cell-identity recognition at individual cell level from single-cell RNA-seq.
  ☆95Updated last year
• yelabucsf / scrna-parameter-estimation
  Direct estimation of mean and covariance from single cell RNA seq experiments
  ☆110Updated last month
• MarioniLab / EmbryoTimecourse2018
  Data and analysis scripts for our Embryo Timecourse paper.
  ☆68Updated 5 years ago
• carmonalab / scGate
  marker-based purification of cell types from single-cell RNA-seq datasets
  ☆112Updated last month
• theislab / scib-pipeline
  Snakemake pipeline that works with the scIB package to benchmark data integration methods.
  ☆73Updated 5 months ago
• chuiqin / irGSEA
  The integration of single cell rank-based gene set enrichment analysis
  ☆124Updated 11 months ago
• navinlabcode / CellTrek
  ☆120Updated 3 years ago