linnarsson-lab / cytograph2

Related projects: ⓘ

• quadbio / organoid_regulomes
  Reproducibility code for the manuscript: 'Inferring and perturbing cell fate regulomes in human cerebral organoids
  ☆24Updated last year
• hsmaan / Iniquitate
  Analysis of imbalanced data and its impacts in a scRNA-seq integration setting
  ☆27Updated 3 months ago
• GreenleafLab / brainchromatin
  Code used to analyze single cell RNA and ATAC sequencing in developing human brain
  ☆31Updated 2 years ago
• Sun-lab / ideas
  Individual level Differential Expression Analysis for Single cells
  ☆22Updated last year
• AllenInstitute / scrattch.bigcat
  iterative clustering pipeline of big single cell datasets.
  ☆22Updated last month
• immunogenomics / cna
  Covarying neighborhood analysis (CNA) is a method for finding structure in- and conducting association analysis with multi-sample single-…
  ☆45Updated 11 months ago
• zakieh-tayyebi / CellSpace
  Scalable sequence-informed embedding of single-cell ATAC-seq data with CellSpace
  ☆30Updated 6 months ago
• bendemeo / shannonca
  Information-based dimensionality reduction
  ☆29Updated last month
• PeterZZQ / CellPath
  ☆19Updated 2 years ago
• caleblareau / maegatk
  Mitochondrial Alteration Enrichment and Genome Analysis Toolkit
  ☆17Updated 8 months ago
• quadbio / simspec
  Calculation of Reference/Cluster Similarity Spectrum (RSS/CSS)
  ☆29Updated 6 months ago
• AmandaKedaigle / OrganoidAtlas
  Code to go along with https://doi.org/10.1016/j.cell.2022.09.010
  ☆19Updated 2 years ago
• gambalab / gficf
  An R implementation of the Gene Frequency - Inverse Cell Frequency method for single cell data normalization
  ☆17Updated last year
• JEFworks-Lab / veloviz
  RNA-velocity informed embeddings for visualizing cellular trajectories
  ☆41Updated 2 years ago
• kkdey / GSSG
  Gene Set + S2G strategy annotations analyzed for disease architecture
  ☆46Updated last year
• NBISweden / single-cell_sib_scilifelab
  SIB/Scilifelab autumn school in single cell omics 2019.
  ☆21Updated 4 years ago
• MarioniLab / StabMap
  Mosaic single cell data integration using non-overlapping features
  ☆34Updated 2 years ago
• pachterlab / GFCP_2022
  RNA velocity validation
  ☆23Updated 2 years ago
• JinmiaoChenLab / ezSingleCell2
  ☆32Updated 8 months ago
• WWXkenmo / ICAnet
  Independent Component Analysis decipher functional modules for better cell clustering and annotation
  ☆15Updated 2 years ago
• rs239 / velorama
  Gene regulatory network inference for RNA velocity and pseudotime data
  ☆22Updated 7 months ago
• ratschlab / scim
  Code for Universal Single-Cell Matching with Unpaired Feature Sets
  ☆19Updated 3 years ago
• jbergenstrahle / STUtility
  ☆44Updated last year
• HectorRDB / condiments
  Trajectory inference across multiple conditions with condiments: differential topology, progression, differentiation, and expression
  ☆21Updated 9 months ago
• veltenlab / CloneTracer
  This repository contains scripts to identify healthy and malignant cells from scRNAseq with CloneTracer and process data from Optimized 1…
  ☆24Updated last year
• buenrostrolab / FigR
  Functional Inference of Gene Regulation
  ☆33Updated 2 months ago
• edroaldo / fusca
  Framework for Unified Single-Cell Analysis (FUSCA) is a software package for single-cell data analysis developed in R. At the moment, it …
  ☆17Updated last year
• jfnavarro / st_analysis
  A toolset for analysis and visualisation of Spatial Transcriptomics datasets.
  ☆18Updated 3 years ago
• CostaLab / scMEGA
  scMEGA: Single-cell Multiomic Enhancer-based Gene regulAtory network inference
  ☆36Updated 2 months ago
• azizilab / decipher
  A single-cell analysis toolkit to jointly analyze samples from distinct conditions
  ☆18Updated last week