Alternatives and similar repositories for PySingleCellNet

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

• dissatisfaction-ai / scHierarchy
  A toolking for cell type hierarchies: marker selection & consistent classification
  ☆22Updated 2 years ago
• caleblareau / maegatk
  Mitochondrial Alteration Enrichment and Genome Analysis Toolkit
  ☆24Updated 2 years ago
• YosefLab / TRAPeS
  TCR Reconstruction Algorithm for Paired-End Single cell
  ☆14Updated 6 years ago
• SpatialTranscriptomicsResearch / std-nb
  Negative binomial regression for Spatial Transcriptomics data as described in Maaskola et al. 2018
  ☆22Updated 7 years ago
• MacoskoLab / slideseq-tools
  Tools for analyzing Slide-seq data
  ☆31Updated 2 years ago
• Teichlab / gene2probe
  Pipeline for designing custom probes against human genes
  ☆20Updated last year
• dpeerlab / Harmony
  Harmony framework for connecting scRNA-seq data from discrete time points
  ☆53Updated last month
• tabdelaal / SIRV
  Spatial RNA velocity
  ☆10Updated last year
• Nanostring-Biostats / InSituType
  An R package for performing cell typing in SMI and other single cell data
  ☆46Updated 8 months ago
• cbg-ethz / SCICoNE
  Single-cell copy number calling and event history reconstruction.
  ☆28Updated last year
• aertslab / ScoMAP
  ScoMAP is an R package to spatially integrate single-cell omics data into virtual cells and infer enhancer-to-gene relationships.
  ☆28Updated 4 years ago
• scverse / genomic-features
  Genomic Features in Python from BioConductor's AnnotationHub
  ☆22Updated this week
• pinellolab / pychromVAR
  A python package for chromVAR
  ☆32Updated 2 years ago
• single-cell-genetics / XClone
  Detection of allele-specific subclonal copy number alterations from single-cell transcriptomic data.
  ☆38Updated 2 months ago
• potulabe / symphonypy
  Port of symphony algorithm of single-cell reference atlas mapping to Python
  ☆33Updated last month
• SchulzLab / STARE
  TF analysis from epigenetic and Hi-C data
  ☆19Updated 9 months ago
• hsmaan / Iniquitate
  Analysis of imbalanced data and its impacts in a scRNA-seq integration setting
  ☆31Updated 10 months ago
• jacobhepkema / scover
  scover
  ☆24Updated 2 years ago
• brianhie / trajectorama
  Multi-study integration of cellular trajectories
  ☆19Updated 5 years ago
• mainciburu / WAT3R
  Workflow for the Association of T-cell receptors from 3' single-cell RNA-seq (WAT3R)
  ☆21Updated 3 years ago
• shahcompbio / spectrum-tme
  Supporting material for publication: "Ovarian cancer mutational processes drive site-specific immune evasion"
  ☆24Updated 8 months ago
• veltenlab / mitoClone
  ☆12Updated 4 years ago
• dpeerlab / scKINETICS
  Code for scKINETICS (ISMB 2023)
  ☆22Updated 2 years ago
• aertslab / PUMATAC
  Pipeline for Universal Mapping of ATAC-seq
  ☆25Updated 3 months ago
• navinlabcode / copykit
  Toolkit for single-cell copy number analysis
  ☆27Updated last month
• cole-trapnell-lab / Scribe
  Regulatory networks with Direct Information
  ☆17Updated 6 years ago
• KChen-lab / MEDALT
  Inference of Minimal Event Distance Aneuploidy Lineage Tree based on single cell copy number profile
  ☆21Updated 2 years ago
• jbergenstrahle / STUtility
  ☆53Updated 2 years ago
• csjansen / SOMatic
  SOMatic is a tool for building Self-Organizing Maps and linking multiple maps.
  ☆14Updated last year
• hemberg-lab / MicroExonator
  Snakemake pipeline for microexon discovery and quantification
  ☆20Updated last year