Alternatives and similar repositories for single-cell-pseudotime

Users that are interested in single-cell-pseudotime are comparing it to the libraries listed below

• saeyslab / nichenetr
  NicheNet: predict active ligand-target links between interacting cells
  ☆536Updated this week
• r3fang / SnapATAC
  Analysis Pipeline for Single Cell ATAC-seq
  ☆317Updated 2 years ago
• Teichlab / cellphonedb
  ☆355Updated 3 years ago
• theislab / scvelo
  RNA Velocity generalized through dynamical modeling
  ☆442Updated 2 months ago
• scRNA-tools / scRNA-tools
  Table of software for the analysis of single-cell RNA-seq data.
  ☆323Updated this week
• cellgeni / sceasy
  A package to help convert different single-cell data formats to each other
  ☆422Updated last year
• GreenleafLab / ArchR
  ArchR : Analysis of Regulatory Chromatin in R (www.ArchRProject.com)
  ☆419Updated 2 months ago
• mdozmorov / scRNA-seq_notes
  A list of scRNA-seq analysis tools
  ☆697Updated 3 weeks ago
• morris-lab / CellOracle
  This is the alpha version of the CellOracle package
  ☆349Updated 4 months ago
• welch-lab / liger
  R package for integrating and analyzing multiple single-cell datasets
  ☆412Updated last week
• omnideconv / immunedeconv
  A unified interface to immune deconvolution methods (CIBERSORT, EPIC, quanTIseq, TIMER, xCell, MCPcounter) and mouse deconvolution method…
  ☆486Updated last week
• crazyhottommy / awesome_spatial_omics
  tools and notes for spatial omics
  ☆289Updated 2 months ago
• Teichlab / scg_lib_structs
  Collections of library structure and sequence of popular single cell genomic methods
  ☆462Updated 5 months ago
• 10XGenomics / cellranger
  10x Genomics Single Cell Analysis
  ☆404Updated 3 months ago
• chris-mcginnis-ucsf / DoubletFinder
  R package for detecting doublets in single-cell RNA sequencing data
  ☆464Updated last month
• cole-trapnell-lab / monocle3
  ☆380Updated 4 months ago
• broadinstitute / infercnv
  Inferring CNV from Single-Cell RNA-Seq
  ☆611Updated 3 months ago
• BorchLab / scRepertoire
  A toolkit for single-cell immune profiling
  ☆332Updated last week
• broadinstitute / CellBender
  CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.
  ☆326Updated 9 months ago
• dylkot / cNMF
  Code and example data for running Consensus Non-negative Matrix Factorization on single-cell RNA-Seq data
  ☆339Updated 2 months ago
• dviraran / SingleR
  SingleR: Single-cell RNA-seq cell types Recognition (legacy version)
  ☆295Updated 4 years ago
• hbctraining / Intro-to-ChIPseq
  Intro to ChIPseq using HPC
  ☆304Updated 2 years ago
• crazyhottommy / TCR-BCR-seq-analysis
  T/B cell receptor sequencing analysis notes
  ☆250Updated 5 months ago
• ENCODE-DCC / atac-seq-pipeline
  ENCODE ATAC-seq pipeline
  ☆414Updated 9 months ago
• hbctraining / scRNA-seq
  ☆560Updated 4 years ago
• NBISweden / workshop-scRNAseq
  Single cell RNA sequencing analysis course
  ☆212Updated last month
• aertslab / pySCENIC
  pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which…
  ☆500Updated last year
• BayraktarLab / cell2location
  Comprehensive mapping of tissue cell architecture via integrated single cell and spatial transcriptomics (cell2location model)
  ☆355Updated last month
• satijalab / seurat-wrappers
  Community-provided extensions to Seurat
  ☆331Updated 5 months ago
• cellgeni / scRNA.seq.course
  Analysis of single cell RNA-seq data course
  ☆136Updated 2 years ago