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 last year
• YosefLab / TRAPeS
  TCR Reconstruction Algorithm for Paired-End Single cell
  ☆14Updated 6 years ago
• caleblareau / maegatk
  Mitochondrial Alteration Enrichment and Genome Analysis Toolkit
  ☆22Updated last year
• cole-trapnell-lab / Scribe
  Regulatory networks with Direct Information
  ☆17Updated 6 years ago
• SchulzLab / STARE
  TF analysis from epigenetic and Hi-C data
  ☆18Updated 7 months ago
• BioThinkLab / SCYN
  ☆10Updated 3 years ago
• hsmaan / Iniquitate
  Analysis of imbalanced data and its impacts in a scRNA-seq integration setting
  ☆30Updated 7 months ago
• dpeerlab / scKINETICS
  Code for scKINETICS (ISMB 2023)
  ☆22Updated 2 years ago
• soedinglab / merlot
  Reconstruct the lineage topology of a scRNA-seq differentiation dataset.
  ☆18Updated 5 years ago
• dpeerlab / Harmony
  Harmony framework for connecting scRNA-seq data from discrete time points
  ☆51Updated last year
• SpatialTranscriptomicsResearch / std-nb
  Negative binomial regression for Spatial Transcriptomics data as described in Maaskola et al. 2018
  ☆22Updated 6 years ago
• LKremer / scbs
  Python package with CLI for the analysis of single cell methylation data. Now known as MethSCAn: https://github.com/anders-biostat/MethSC…
  ☆12Updated last year
• potulabe / symphonypy
  Port of symphony algorithm of single-cell reference atlas mapping to Python
  ☆32Updated 3 weeks ago
• MacoskoLab / slideseq-tools
  Tools for analyzing Slide-seq data
  ☆31Updated 2 years ago
• juliaolivieri / SpliZ_pipeline
  Code to calculate the Splicing Z Score (SpliZ) for single cell RNA-seq splicing analysis
  ☆35Updated 3 years ago
• epigen / scifiRNA-seq
  ☆12Updated 4 years ago
• khodosevichlab / CellAnnotatoR
  Automated marker-based annotation of cell types
  ☆13Updated 3 years ago
• brianhie / trajectorama
  Multi-study integration of cellular trajectories
  ☆19Updated 5 years ago
• doraadong / TraSig
  Inferring cell-cell interactions from pseudotime ordering of scRNA-Seq data
  ☆25Updated 2 years ago
• Teichlab / gene2probe
  Pipeline for designing custom probes against human genes
  ☆18Updated 11 months ago
• kostkalab / vaeda
  Vaeda method for computational doublet annotation
  ☆17Updated last year
• MarioniLab / oor_benchmark
  A sandbox for benchmarking detection of out-of-reference cells in single-cell genomics data
  ☆13Updated last year
• veltenlab / mitoClone
  ☆12Updated 4 years ago
• cxzhu / Paired-seq
  Paired-seq
  ☆14Updated last year
• Teichlab / MultiMAP
  MultiMAP for integration of single cell multi-omics
  ☆56Updated last year
• mainciburu / WAT3R
  Workflow for the Association of T-cell receptors from 3' single-cell RNA-seq (WAT3R)
  ☆21Updated 2 years ago
• tabdelaal / SIRV
  Spatial RNA velocity
  ☆10Updated last year
• dibbelab / gficf
  An R implementation of the Gene Frequency - Inverse Cell Frequency method for single cell data normalization
  ☆15Updated 3 years ago
• aertslab / PUMATAC
  Pipeline for Universal Mapping of ATAC-seq
  ☆25Updated last month
• ayshwaryas / ddqc
  Biology-centered data-driven quality control for scRNA-seq
  ☆18Updated 2 years ago