Alternatives and similar repositories for DBiT-seq

Users that are interested in DBiT-seq are comparing it to the libraries listed below

• jfnavarro / st_pipeline
  ST Pipeline contains the tools and scripts needed to process and analyze the raw files generated with the Spatial Transcriptomics method …
  ☆88Updated last month
• aerickso / SpatialInferCNV
  Clone Calling from Visium Spatial Transcriptomics of Cancer samples
  ☆87Updated 3 years ago
• Japrin / STARTRAC
  STARTRAC(Single T-cell Analysis by Rna-seq and Tcr TRACking)
  ☆114Updated 8 months ago
• tiroshlab / 3ca
  Code for reproducing the analysis in Gavish et al. "The transcriptional hallmarks of intra-tumor heterogeneity across a thousand tumors".
  ☆130Updated last year
• BlishLab / scriabin
  Analysis of cell-cell communication at single-cell resolution
  ☆105Updated last year
• navinlabcode / CellTrek
  ☆126Updated 3 years ago
• genecell / COSG
  Accurate and fast cell marker gene identification with COSG
  ☆54Updated 2 weeks ago
• yelabucsf / scrna-parameter-estimation
  Direct estimation of mean and covariance from single cell RNA seq experiments
  ☆126Updated 8 months ago
• SCCAF / sccaf
  Single-Cell Clustering Assessment Framework
  ☆107Updated 2 years ago
• axelalmet / flowsig
  Python package to find communication-driven intercellular flows from single-cell RNA-sequencing and spatial transcriptomics data.
  ☆80Updated 8 months ago
• naomihabiblab / BEYOND_DLPFC
  Cellular dynamics across aged human brains uncover a multicellular cascade leading to Alzheimer’s disease
  ☆62Updated last year
• 10XGenomics / HumanColonCancer_VisiumHD
  Associated code to the manuscript "Characterization of immune cell populations in the tumor microenvironment of colorectal cancer using h…
  ☆109Updated 7 months ago
• ShobiStassen / VIA
  trajectory inference
  ☆105Updated 11 months ago
• Teichlab / Genes2Genes
  Aligning gene expression trajectories of single-cell reference and query systems
  ☆80Updated 5 months ago
• BayraktarLab / cell2fate
  Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.
  ☆83Updated 9 months ago
• aertslab / create_cisTarget_databases
  Create cisTarget databases
  ☆54Updated 6 months ago
• matanhofree / crc-immune-hubs
  Principal analysis code used in for analysis of single cell RNAseq of primary untreated colon cancer. As described in: "Spatially organiz…
  ☆40Updated 4 years ago
• jackbibby1 / SCPA
  R package for pathway analysis in scRNA-seq data
  ☆76Updated last year
• LocasaleLab / Single-Cell-Metabolic-Landscape
  Pipeline for exploring metebolic heterogeneity at single-cell resolution
  ☆74Updated 5 years ago
• ShellyCoder / cellcall
  inferring cell-cell communication from scRNA-seq of ligand-receptor
  ☆85Updated 2 years ago
• icbi-lab / luca
  Single-cell Lung Cancer Atlas with 1.2M cells
  ☆85Updated 11 months ago
• zhengrongbin / MEBOCOST
  A python-based package and software to predict metabolite mediated cell-cell communications by single-cell RNA-seq data
  ☆78Updated 5 months ago
• harbourlab / uphyloplot2
  Draw phylogenetic trees of tumor evolution
  ☆86Updated 2 years ago
• theislab / regvelo
  inferring regulatory cellular dynamics
  ☆61Updated 3 months ago
• di-0579 / Spatial_epigenome-transcriptome_co-sequencing
  ☆34Updated 2 years ago
• aertslab / pycisTopic
  pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.
  ☆78Updated 3 weeks ago
• quadbio / scMultiome_analysis_vignette
  Tutorial of single-cell RNA-ATAC multiomic sequencing data analysis
  ☆68Updated last year
• drieslab / awesome-spatial-data-analysis
  Awesome list of tools and methods to perform spatial transcriptomic data analysis.
  ☆48Updated 4 years ago
• Zhiliang-Bai / Patho-DBiT
  Patho-DBiT is a platform to spatially decode RNA Biology in archival FFPE tissues.
  ☆13Updated last year
• immunogenomics / LISI
  Methods to compute Local Inverse Simpson's Index (LISI)
  ☆72Updated 4 years ago