Alternatives and similar repositories for scanpy-scripts

Users that are interested in scanpy-scripts are comparing it to the libraries listed below

• vib-singlecell-nf / vsn-pipelines
  A repository of pipelines for single-cell data in Nextflow DSL2
  ☆80Updated 2 years ago
• minoda-lab / universc
  UniverSC: a flexible cross-platform single-cell data processing pipeline
  ☆46Updated last year
• statgen / popscle
  A suite of population scale analysis tools for single-cell genomics data including implementation of Demuxlet / Freemuxlet methods and au…
  ☆58Updated 4 years ago
• dpeerlab / Harmony
  Harmony framework for connecting scRNA-seq data from discrete time points
  ☆53Updated 2 months ago
• HYsxe / PRINT
  ☆37Updated last year
• czbiohub-sf / tabula-sapiens
  Single Cell Transcriptomics of 25 Human Organs to Create a Tabula Sapiens
  ☆44Updated last month
• CFeregrino / scWGCNA
  scWGCNA
  ☆61Updated 3 years ago
• lanagarmire / SSrGE
  ☆34Updated 6 years ago
• lcmmichielsen / scHPL
  ☆37Updated 2 weeks ago
• Xinglab / PEGASAS
  Pathway Enrichment-Guided Activity Study of Alternative Splicing (PEGASAS)
  ☆20Updated 3 years ago
• saezlab / greta
  Benchmark of GRNs using the GRETA pipeline
  ☆31Updated last week
• UPSUTER / GEMLI
  ☆33Updated last year
• lhqing / ALLCools
  Toolkit for single-cell DNA methylation analysis.
  ☆46Updated 3 weeks ago
• Novartis / scar
  scAR (single-cell Ambient Remover) is a deep learning model for removal of the ambient signals in droplet-based single cell omics
  ☆57Updated last year
• cole-trapnell-lab / cicero-release
  ☆59Updated last year
• wenweixiong / MARVEL
  ☆53Updated last year
• gofflab / developing_mouse_retina_scRNASeq
  10x single cell RNA-seq data from the developing mouse retina
  ☆16Updated 4 years ago
• KenLauLab / dropkick
  Automated cell filtering for single-cell RNA sequencing data
  ☆25Updated 2 years ago
• nghiavtr / SCmut
  ☆34Updated 6 years ago
• DeplanckeLab / ChromatinHD
  High-definition modeling of chromatin + transcriptomics data
  ☆26Updated last week
• bvieth / scRNA-seq-pipelines
  Compendium to "A Systematic Evaluation of Single Cell RNA-Seq Analysis Pipelines"
  ☆55Updated 4 years ago
• cantinilab / HuMMuS
  Molecular interactions inference from single-cell multi-omics data
  ☆30Updated 3 weeks ago
• sandberg-lab / Smart-seq3
  Code and analysis pipeline for Smart-seq3 (Hagemann-Jensen et al. 2020).
  ☆57Updated 4 years ago
• fmicompbio / monaLisa
  binned motif enrichment analysis and visualisation
  ☆45Updated last week
• pinellolab / pychromVAR
  A python package for chromVAR
  ☆33Updated 2 years ago
• JunyueC / sci-fate_analysis
  Downstream analysis script for sci-fate (TF-gene linkage analysis / cell linkage analysis)
  ☆24Updated 6 years ago
• alexisvdb / singleCellHaystack
  Finding surprising needles (=genes) in haystacks (=single cell transcriptome data).
  ☆86Updated 2 months ago
• dan-landau / IronThrone-GoT
  processes GoT amplicon data and generates a table of metrics
  ☆32Updated 3 years ago
• VCCRI / Sierra
  Discover differential transcript usage from polyA-captured single cell RNA-seq data
  ☆53Updated 2 years ago
• lhqing / cemba_data
  Mapping pipeline for snmC-seq based technologies.
  ☆20Updated 2 years ago