GuignardLab / sc3D

Related projects ⓘ

Alternatives and complementary repositories for sc3D

• wanglab-broad / CAST
  CAST package
  ☆25Updated 3 weeks ago
• raphael-group / STARCH
  Spatial Transcriptomics Algorithm Reconstructing Copy-number Heterogeneity
  ☆20Updated 4 months ago
• liuqivandy / SpaGene
  ☆17Updated last year
• AllenInstitute / scrattch.bigcat
  iterative clustering pipeline of big single cell datasets.
  ☆26Updated last week
• BayraktarLab / cell2fate
  Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.
  ☆36Updated 2 months ago
• PMBio / MuDataSeurat
  .h5mu files interface for Seurat
  ☆26Updated 11 months ago
• Teichlab / Genes2Genes
  Aligning gene expression trajectories of single-cell reference and query systems
  ☆46Updated last month
• immunogenomics / cna
  Covarying neighborhood analysis (CNA) is a method for finding structure in- and conducting association analysis with multi-sample single-…
  ☆45Updated last month
• LouisFaure / scFates
  a scalable python suite for tree inference and advanced pseudotime analysis from scRNAseq data.
  ☆50Updated 3 weeks ago
• dyxmvp / Spatial_ATAC-seq
  ☆20Updated last year
• theislab / ncem_tutorials
  ☆12Updated 2 years ago
• wanglabtongji / STRIDE
  STRIDE (Spatial TRanscRIptomics DEconvolution by topic modelling) is a cell-type deconvolution tool for spatial transcriptomics by using …
  ☆17Updated 10 months ago
• wanglab-broad / spin
  SPatial INtegration of spatially resolved transcriptomics datasets
  ☆13Updated 2 months ago
• GreenleafLab / brainchromatin
  Code used to analyze single cell RNA and ATAC sequencing in developing human brain
  ☆31Updated 2 years ago
• theislab / spapros
  Python package for Probe set selection for targeted spatial transcriptomics.
  ☆28Updated this week
• AmandaKedaigle / OrganoidAtlas
  Code to go along with https://doi.org/10.1016/j.cell.2022.09.010
  ☆20Updated 2 years ago
• HectorRDB / condiments
  Trajectory inference across multiple conditions with condiments: differential topology, progression, differentiation, and expression
  ☆25Updated last month
• MagpiePKU / EpiTrace
  Cell age determination by scATAC-seq and bulk-ATAC-seq
  ☆26Updated 2 months ago
• caleblareau / maegatk
  Mitochondrial Alteration Enrichment and Genome Analysis Toolkit
  ☆17Updated 10 months ago
• kunwang34 / PhyloVelo
  PhyloVelo, Phylogeny-based transcriptomic velocity of single cells
  ☆40Updated last year
• KChen-lab / bindSC
  Bi-order integration (in silico multi-omics data) of single cell RNA sequencing, single cell ATAC sequencing, spacial transcriptomics and…
  ☆34Updated last year
• YosefLab / mrvi_archive
  Multi-resolution Variational Inference
  ☆22Updated last month
• YingMa0107 / IRIS
  Integrative and Reference-Informed Spatial Domain Detection for Spatial Transcriptomics
  ☆27Updated 5 months 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
• WWXkenmo / ICAnet
  Independent Component Analysis decipher functional modules for better cell clustering and annotation
  ☆16Updated 2 years ago
• gerstung-lab / BaSISS
  Code for the "Spatial genomics maps the structure, nature and evolution of cancer clones" paper
  ☆23Updated 2 years ago
• doraadong / TraSig
  Inferring cell-cell interactions from pseudotime ordering of scRNA-Seq data
  ☆24Updated last year
• bioinfo-biols / SEVtras
  sEV-containing droplet identification in scRNA-seq data (SEVtras)
  ☆20Updated 2 weeks ago
• hms-dbmi / crestree
  Neural Crest Fate Decisions
  ☆10Updated 5 years ago
• zakieh-tayyebi / CellSpace
  Scalable sequence-informed embedding of single-cell ATAC-seq data with CellSpace
  ☆34Updated 9 months ago