ctlab / fgsea

Related projects: ⓘ

• broadinstitute / ssGSEA2.0
  Single sample Gene Set Enrichment analysis (ssGSEA) and PTM Enrichment Analysis (PTM-SEA)
  ☆232Updated 6 months ago
• omnideconv / immunedeconv
  A unified interface to immune deconvolution methods (CIBERSORT, EPIC, quanTIseq, TIMER, xCell, MCPcounter) and mouse deconvolution method…
  ☆440Updated last month
• YuLab-SMU / enrichplot
  Visualization of Functional Enrichment Result
  ☆226Updated 2 weeks ago
• hbctraining / Training-modules
  Materials for short, half-day workshops
  ☆305Updated this week
• PoisonAlien / maftools
  Summarize, Analyze and Visualize MAF files from TCGA or in-house studies.
  ☆440Updated last week
• thelovelab / DESeq2
  Differential expression of RNA-seq data using the Negative Binomial
  ☆351Updated last month
• welch-lab / liger
  R package for integrating and analyzing multiple single-cell datasets
  ☆381Updated 5 months ago
• satijalab / seurat-wrappers
  Community-provided extensions to Seurat
  ☆296Updated last month
• hbctraining / DGE_workshop
  ☆365Updated 2 years ago
• ncborcherding / scRepertoire
  A toolkit for single-cell immune profiling
  ☆301Updated 3 weeks ago
• bernatgel / karyoploteR
  karyoploteR - An R/Bioconductor package to plot arbitrary data along the genome
  ☆296Updated 8 months ago
• hbctraining / DGE_workshop_salmon_online
  ☆169Updated 3 weeks ago
• kevinblighe / EnhancedVolcano
  Publication-ready volcano plots with enhanced colouring and labeling
  ☆399Updated 3 months ago
• saeyslab / nichenetr
  NicheNet: predict active ligand-target links between interacting cells
  ☆467Updated 2 weeks ago
• MarioniLab / miloR
  R package implementation of Milo for testing for differential abundance in KNN graphs
  ☆335Updated this week
• YuLab-SMU / ChIPseeker
  ChIP peak Annotation, Comparison and Visualization
  ☆220Updated 3 weeks ago
• satijalab / sctransform
  R package for modeling single cell UMI expression data using regularized negative binomial regression
  ☆207Updated 6 months ago
• smorabit / hdWGCNA
  High dimensional weighted gene co-expression network analysis
  ☆341Updated 2 months ago
• crazyhottommy / awesome_spatial_omics
  tools and notes for spatial omics
  ☆212Updated 5 months ago
• rcastelo / GSVA
  Gene set variation analysis
  ☆192Updated this week
• broadinstitute / infercnv
  Inferring CNV from Single-Cell RNA-Seq
  ☆554Updated last month
• scRNA-tools / scRNA-tools
  Table of software for the analysis of single-cell RNA-seq data.
  ☆303Updated this week
• GreenleafLab / ArchR
  ArchR : Analysis of Regulatory Chromatin in R (www.ArchRProject.com)
  ☆377Updated 2 months ago
• SingleR-inc / SingleR
  Clone of the Bioconductor repository for the SingleR package.
  ☆172Updated this week
• Teichlab / scg_lib_structs
  Collections of library structure and sequence of popular single cell genomic methods
  ☆417Updated last week
• sdparekh / zUMIs
  zUMIs: A fast and flexible pipeline to process RNA sequencing data with UMIs
  ☆273Updated 2 months ago
• liulab-dfci / MAESTRO
  Single-cell Transcriptome and Regulome Analysis Pipeline
  ☆274Updated last year
• chris-mcginnis-ucsf / DoubletFinder
  R package for detecting doublets in single-cell RNA sequencing data
  ☆400Updated 4 months ago
• kevinblighe / E-MTAB-6141
  Data from Lewis, Barnes, Blighe et al., Cell Rep. 2019 Aug 27; 28(9): 2455–2470.e5.
  ☆116Updated 4 years ago
• hbctraining / Intro-to-rnaseq-hpc-O2
  This repository has teaching materials for a 2 and 3-day Introduction to RNA-sequencing data analysis workshop using the O2 Cluster
  ☆164Updated 3 years ago