Teichlab / sctk

Related projects ⓘ

Alternatives and complementary repositories for sctk

• YosefLab / mrvi_archive
  Multi-resolution Variational Inference
  ☆22Updated last month
• saeyslab / spotless-benchmark
  A repository for benchmarking spatial deconvolution and mapping tools
  ☆27Updated last month
• BayraktarLab / cell2fate
  Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.
  ☆36Updated 2 months ago
• immunogenomics / cna
  Covarying neighborhood analysis (CNA) is a method for finding structure in- and conducting association analysis with multi-sample single-…
  ☆45Updated 3 weeks ago
• PMBio / MuDataSeurat
  .h5mu files interface for Seurat
  ☆26Updated 11 months ago
• cellatlas / human
  ☆40Updated 3 weeks ago
• BradBalderson / Cytocipher
  Analysis methods for analysing single cell RNA-seq data; particularly with the goal of checking if tentative clusters of cells are signif…
  ☆32Updated last year
• scverse / anndataR
  AnnData interoperability in R
  ☆58Updated this week
• saezlab / CollecTRI
  Gene regulatory network containing signed transcription factor-target gene interactions
  ☆63Updated 6 months ago
• PoolLab / generecovery
  ☆29Updated last year
• lcmmichielsen / scHPL
  ☆34Updated 6 months ago
• Zhen-Miao / PICsnATAC
  Paired Insertion Counting for snATAC-seq data
  ☆16Updated 3 months ago
• zakieh-tayyebi / CellSpace
  Scalable sequence-informed embedding of single-cell ATAC-seq data with CellSpace
  ☆34Updated 8 months ago
• brianpenghe / python-genomics
  A set of files to do genomics analysis on python
  ☆18Updated 5 months ago
• fmicompbio / adv_singlecell_2022
  Material for the "Advanced topics in single-cell analysis" course (2022 edition)
  ☆16Updated 2 years ago
• dpeerlab / scKINETICS
  Code for scKINETICS (ISMB 2023)
  ☆20Updated last year
• rajewsky-lab / spacemake
  ☆39Updated this week
• caleblareau / maegatk
  Mitochondrial Alteration Enrichment and Genome Analysis Toolkit
  ☆17Updated 10 months ago
• zijianni / SpotClean
  R package for decontaminating the spot swapping effect and recovering true expression in spatial transcriptomics data
  ☆24Updated 5 months ago
• YosefLab / PopV
  ☆23Updated 2 months ago
• almaan / eggplant
  ☆20Updated 2 years ago
• rargelaguet / mouse_organogenesis_10x_multiome_publication
  Code to reproduce the analysis of "Decoding gene regulation in the mouse embryo using single-cell multi-omics""
  ☆40Updated 2 years ago
• cellatlas / cellatlas
  ☆16Updated 4 months ago
• UPSUTER / GEMLI
  ☆27Updated 3 months ago
• pachterlab / concordex
  Identification of spatial homogeneous regions
  ☆19Updated last month
• Teichlab / drug2cell
  Gene group activity utility functions for Scanpy
  ☆56Updated 3 months ago
• bendemeo / shannonca
  Information-based dimensionality reduction
  ☆29Updated 3 months ago
• pachterlab / CGCCP_2023
  scVI extension for unspliced RNA
  ☆16Updated 3 weeks ago
• morris-lab / Capybara
  Capybara: A computational tool to measure cell identity and fate transitions
  ☆57Updated 2 years ago
• netbiolab / scHumanNet
  Analysis cell-type-specific functional gene network, with SCINET and HumanNetv3
  ☆38Updated 8 months ago