Alternatives and similar repositories for SHARE-seq-alignment:

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

• 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
• cistrome / MIRA
  Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.
  ☆60Updated 9 months ago
• AllonKleinLab / paper-data
  ☆19Updated 3 weeks ago
• HYsxe / PRINT
  ☆34Updated 4 months ago
• caleblareau / mtscATACpaper_reproducibility
  Repository to reproduce all analyses for Lareau*, Ludwig*, et al. 2020
  ☆16Updated last year
• kunwang34 / PhyloVelo
  PhyloVelo, Phylogeny-based transcriptomic velocity of single cells
  ☆42Updated last year
• LungCellAtlas / HLCA_reproducibility
  This repository contains all code used for the Human Lung Cell Atlas project.
  ☆45Updated last year
• xiaoyeye / TFvelo
  ☆44Updated 8 months ago
• earmingol / cell2cell
  User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins
  ☆59Updated 7 months ago
• snehamitra / SCARlink
  ☆47Updated 4 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…
  ☆39Updated 3 years ago
• csjansen / SOMatic
  SOMatic is a tool for building Self-Organizing Maps and linking multiple maps.
  ☆14Updated 5 months ago
• Moldia / Xenium_benchmarking
  Code used to benchmark Xenium
  ☆42Updated 7 months ago
• Single-Cell-Genomics-Group-CNAG-CRG / TonsilAtlas
  Scripts and notebooks to reproduce all analysis from Massoni-Badosa et al. (2022)
  ☆27Updated 3 weeks ago
• sqjin / scAI
  An unsupervised approach for the integrative analysis of single-cell multi-omics data
  ☆28Updated 4 years ago
• morris-lab / BiddyetalWorkflow
  This repository contains our CellTag workflow, as deployed in our 2018 Biddy et al., Nature paper.
  ☆31Updated 7 months ago
• AllonKleinLab / cospar
  ☆26Updated last year
• StatBiomed / SpatialDM
  Spatial direct messaging detected by bivariate Moran
  ☆24Updated 2 weeks ago
• whhudson / spatialTCR
  ☆12Updated 2 years ago
• buenrostrolab / FigR
  Functional Inference of Gene Regulation
  ☆39Updated 6 months ago
• shuxiaoc / mario-py
  MARIO: single-cell proteomic data matching and integration using both shared and distinct features
  ☆22Updated last year
• jzhoulab / quasildr
  Quasilinear data representations for single-cell omics data analysis
  ☆42Updated 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
• Teichlab / Pan_fetal_immune
  Collection of scripts for analysis of pan fetal immune atlas
  ☆26Updated 2 years ago
• gifford-lab / prescient
  Codebase for PRESCIENT (Potential eneRgy undErlying Single Cell gradIENTs) for generative modeling of single-cell time-series.
  ☆44Updated last week
• tanaylab / metacells
  Metacells - Single-cell RNA Sequencing Analysis
  ☆101Updated 4 months ago
• ratschlab / scim
  Code for Universal Single-Cell Matching with Unpaired Feature Sets
  ☆20Updated 3 years ago
• emdann / milopy
  Python implementation of Milo for differential abundance testing on KNN graph
  ☆62Updated last year
• zhengli09 / BASS
  Bayesian Analytics for Spatial Segmentation
  ☆22Updated 3 months ago
• YosefLab / mrvi_archive
  Multi-resolution Variational Inference
  ☆22Updated 3 months ago