Alternatives and similar repositories for SAW

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

• JiekaiLab / scDIOR
  scDIOR: Single cell data IO softwaRe
  ☆140Updated 3 years ago
• navinlabcode / copykat
  ☆235Updated 11 months ago
• cortes-ciriano-lab / SComatic
  A tool for detecting somatic variants in single cell data
  ☆205Updated 8 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
  ☆92Updated last month
• digitalcytometry / ecotyper
  EcoTyper is a machine learning framework for large-scale identification of cell states and cellular ecosystems from gene expression data.
  ☆201Updated last year
• czbiohub-sf / scell_lung_adenocarcinoma
  This is the repository that contains the analysis of the lung adenocarcinoma single cell dataset
  ☆147Updated 4 years ago
• basilkhuder / Seurat-to-RNA-Velocity
  A guide to using a Seurat object in conjunction with RNA Velocity
  ☆139Updated 3 years ago
• aertslab / SCENICprotocol
  A scalable SCENIC workflow for single-cell gene regulatory network analysis
  ☆158Updated 2 years ago
• digitalcytometry / cytotrace2
  CytoTRACE 2 is an interpretable AI method for predicting cellular potency and absolute developmental potential from scRNA-seq data.
  ☆147Updated 2 months ago
• cellgeni / schard
  reticulate-free single cell format conversion
  ☆154Updated 5 months ago
• constantAmateur / SoupX
  R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data
  ☆279Updated 2 years ago
• saeyslab / multinichenetr
  MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell trans…
  ☆147Updated 4 months ago
• JiekaiLab / scTE
  ☆107Updated last year
• kaizhang / SnapATAC2
  Single-cell epigenomics analysis tools
  ☆260Updated this week
• aertslab / scenicplus
  SCENIC+ is a python package to build gene regulatory networks (GRNs) using combined or separate single-cell gene expression (scRNA-seq) a…
  ☆224Updated 4 months ago
• tanlabcode / spatial-bonemarrow-atlas
  This repository contains the code used to generate figures and perform analysis for the manuscript titled "Transcriptomic and Spatial Pro…
  ☆82Updated 7 months ago
• IanevskiAleksandr / sc-type
  ☆266Updated 6 months ago
• singleron-RD / CeleScope
  Single Cell Analysis Pipelines
  ☆102Updated this week
• STOmics / Stereopy
  A toolkit of spatial transcriptomic analysis.
  ☆245Updated this week
• ZJUFanLab / scCATCH
  Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data
  ☆227Updated 2 years ago
• sunduanchen / Scissor
  Scissor package
  ☆222Updated last year
• dviraran / xCell
  Cell types enrichment analysis
  ☆197Updated last year
• Teichlab / cellhint
  A tool for semi-automatic cell type harmonization and integration
  ☆105Updated 2 months ago
• YMa-lab / CARD
  ☆120Updated last year
• jfnavarro / st_pipeline
  ST Pipeline contains the tools and scripts needed to process and analyze the raw files generated with the Spatial Transcriptomics method …
  ☆82Updated 2 months ago
• hbctraining / Investigating-chromatin-biology-ChIPseq
  ☆92Updated 3 weeks ago
• erilu / bulk-rnaseq-analysis
  A complete guide for analyzing bulk RNA-seq data. Go from raw FASTQ files to mapping reads using STAR and differential gene expression an…
  ☆87Updated 4 years ago
• wu-yc / scMetabolism
  Quantifying metabolism activity at the single-cell resolution
  ☆136Updated 9 months ago
• neurorestore / Libra
  ☆169Updated 3 weeks ago
• mdozmorov / scATAC-seq_notes
  scATAC-seq data analysis tools and papers
  ☆109Updated last year