Alternatives and similar repositories for insitu_probe_generator

Users that are interested in insitu_probe_generator are comparing it to the libraries listed below

• JiekaiLab / scDIOR
  scDIOR: Single cell data IO softwaRe
  ☆141Updated 3 years ago
• yelabucsf / scrna-parameter-estimation
  Direct estimation of mean and covariance from single cell RNA seq experiments
  ☆110Updated last month
• jfnavarro / st_pipeline
  ST Pipeline contains the tools and scripts needed to process and analyze the raw files generated with the Spatial Transcriptomics method …
  ☆84Updated 3 months ago
• JiekaiLab / scTE
  ☆107Updated last year
• igrabski / sc-SHC
  Significance analysis for clustering single-cell RNA-sequencing data
  ☆116Updated 9 months ago
• SpatialTranscriptomicsResearch / st_pipeline
  ST Pipeline contains the tools and scripts needed to process and analyze the raw files generated with the Spatial Transcriptomics method …
  ☆83Updated 4 years ago
• digitalcytometry / ecotyper
  EcoTyper is a machine learning framework for large-scale identification of cell states and cellular ecosystems from gene expression data.
  ☆204Updated last year
• Dragonmasterx87 / Interactive-3D-Plotting-in-Seurat-3.0.0
  This repository contains R code, with which you can create 3D UMAP and tSNE plots of Seurat analyzed scRNAseq data
  ☆121Updated 2 years ago
• basilkhuder / Seurat-to-RNA-Velocity
  A guide to using a Seurat object in conjunction with RNA Velocity
  ☆139Updated 3 years ago
• timoast / sinto
  Tools for single-cell data processing
  ☆125Updated last year
• TheHumphreysLab / plot1cell
  ☆110Updated 3 months ago
• AllonMKlein / scrublet
  Detect doublets in single-cell RNA-seq data
  ☆85Updated 5 years ago
• dcjones / proseg
  Probabilistic cell segmentation for in situ spatial transcriptomics
  ☆101Updated this week
• chris-mcginnis-ucsf / MULTI-seq
  R implementation of MULTI-seq sample classification workflow
  ☆62Updated last year
• satijalab / azimuth
  A Shiny web app for mapping datasets using Seurat v4
  ☆130Updated 7 months ago
• swolock / scrublet
  Detect doublets in single-cell RNA-seq data
  ☆153Updated 4 years ago
• 10XGenomics / loupeR
  Convert Seurat objects to 10x Genomics Loupe files.
  ☆126Updated last month
• cellgeni / STARsolo
  wrapper scripts for convenient STARsolo processing of 10X and other scRNA-seq
  ☆58Updated 3 weeks ago
• constantAmateur / SoupX
  R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data
  ☆279Updated 2 years ago
• cellgeni / schard
  reticulate-free single cell format conversion
  ☆160Updated 6 months ago
• MarioniLab / EmbryoTimecourse2018
  Data and analysis scripts for our Embryo Timecourse paper.
  ☆68Updated 5 years ago
• changwn / scFEA
  single cell Flux Estimation Analysis (scFEA) Try the below web server!
  ☆124Updated last year
• CebolaLab / ATAC-seq
  Analysis pipeline for ATAC-seq data
  ☆61Updated last year
• rnakato / ShortCake
  A docker image for single-cell analysis
  ☆88Updated 4 months ago
• BaderLab / CellAnnotationTutorial
  Accompanying code for the tutorial: Annotating single cell transcriptomic maps using automated and manual methods
  ☆93Updated 2 years ago
• rpolicastro / scProportionTest
  ☆68Updated last year
• tanlabcode / spatial-bonemarrow-atlas
  This repository contains the code used to generate figures and perform analysis for the manuscript titled "Transcriptomic and Spatial Pro…
  ☆83Updated 8 months ago
• JonathanShor / DoubletDetection
  Doublet detection in single-cell RNA-seq data.
  ☆91Updated 4 months ago
• SCCAF / sccaf
  Single-Cell Clustering Assessment Framework
  ☆101Updated last year
• AllonKleinLab / SPRING_dev
  ☆69Updated last year