Alternatives and similar repositories for scRNA-seq_notes

Users that are interested in scRNA-seq_notes are comparing it to the libraries listed below

• hbctraining / Intro-to-scRNAseq
  ☆635Updated this week
• hbctraining / scRNA-seq
  ☆591Updated 4 years ago
• zhanghao-njmu / SCP
  An end-to-end Single-Cell Pipeline designed to facilitate comprehensive analysis and exploration of single-cell data.
  ☆598Updated last week
• aertslab / pySCENIC
  pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which…
  ☆562Updated 5 months ago
• mousepixels / sanbomics_scripts
  scripts and notebooks from sanbomics
  ☆453Updated last year
• saeyslab / nichenetr
  NicheNet: predict active ligand-target links between interacting cells
  ☆596Updated 3 weeks ago
• hemberg-lab / scRNA.seq.course
  Analysis of single cell RNA-seq data course
  ☆675Updated 3 years ago
• theislab / single-cell-best-practices
  https://www.sc-best-practices.org
  ☆1,072Updated 3 weeks ago
• broadinstitute / infercnv
  Inferring CNV from Single-Cell RNA-Seq
  ☆647Updated 3 weeks ago
• mikelove / awesome-multi-omics
  List of software packages for multi-omics analysis
  ☆879Updated last month
• crazyhottommy / scRNAseq-analysis-notes
  scRNAseq analysis notes from Ming Tang
  ☆765Updated last year
• jinworks / CellChat
  R toolkit for inference, visualization and analysis of cell-cell communication from single-cell and spatially resolved transcriptomics
  ☆497Updated last month
• agitter / single-cell-pseudotime
  An overview of algorithms for estimating pseudotime in single-cell RNA-seq data
  ☆430Updated 3 weeks ago
• immunogenomics / harmony
  Fast, sensitive and accurate integration of single-cell data with Harmony
  ☆614Updated last month
• crazyhottommy / ChIP-seq-analysis
  ChIP-seq analysis notes from Ming Tang
  ☆832Updated last year
• theislab / scvelo
  RNA Velocity generalized through dynamical modeling
  ☆475Updated 3 weeks ago
• Teichlab / scg_lib_structs
  Collections of library structure and sequence of popular single cell genomic methods
  ☆486Updated 6 months ago
• chris-mcginnis-ucsf / DoubletFinder
  R package for detecting doublets in single-cell RNA sequencing data
  ☆511Updated 8 months ago
• aertslab / SCENIC
  SCENIC is an R package to infer Gene Regulatory Networks and cell types from single-cell RNA-seq data.
  ☆469Updated last year
• omnideconv / immunedeconv
  A unified interface to immune deconvolution methods (CIBERSORT, EPIC, quanTIseq, TIMER, xCell, MCPcounter) and mouse deconvolution method…
  ☆512Updated last month
• sqjin / CellChat
  R toolkit for inference, visualization and analysis of cell-cell communication from single-cell data
  ☆748Updated last year
• Starlitnightly / omicverse
  A python library for multi omics included bulk, single cell and spatial RNA-seq analysis.
  ☆788Updated last week
• crazyhottommy / RNA-seq-analysis
  RNAseq analysis notes from Ming Tang
  ☆1,055Updated 4 years ago
• GreenleafLab / ArchR
  ArchR : Analysis of Regulatory Chromatin in R (www.ArchRProject.com)
  ☆436Updated 9 months ago
• ventolab / CellphoneDB
  CellPhoneDB can be used to search for a particular ligand/receptor, or interrogate your own HUMAN single-cell transcriptomics data.
  ☆447Updated 5 months ago
• theislab / single-cell-tutorial
  Single cell current best practices tutorial case study for the paper:Luecken and Theis, "Current best practices in single-cell RNA-seq an…
  ☆1,532Updated 2 years ago
• cellgeni / sceasy
  A package to help convert different single-cell data formats to each other
  ☆448Updated last year
• cole-trapnell-lab / monocle3
  ☆423Updated 2 months ago
• 10XGenomics / cellranger
  10x Genomics Single Cell Analysis
  ☆437Updated 9 months ago
• morris-lab / CellOracle
  This is the alpha version of the CellOracle package
  ☆401Updated 10 months ago