Alternatives and similar repositories for MOFA

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

• mskcc / RNAseqDB
  ☆142Updated 7 years ago
• Hoohm / dropSeqPipe
  A SingleCell RNASeq pre-processing snakemake workflow
  ☆148Updated 2 years ago
• zhangyuqing / ComBat-seq
  Batch effect adjustment based on negative binomial regression for RNA sequencing count data
  ☆198Updated 5 years ago
• Oshlack / splatter
  Simple simulation of single-cell RNA sequencing data
  ☆232Updated last week
• czbiohub-sf / tabula-muris
  Code and annotations for the Tabula Muris single-cell transcriptomic dataset.
  ☆194Updated 2 years ago
• dviraran / xCell
  Cell types enrichment analysis
  ☆204Updated last year
• dynverse / dynbenchmark
  Comparison of methods for trajectory inference on single-cell data 🥇
  ☆218Updated 2 years ago
• tabdelaal / scRNAseq_Benchmark
  Bench-marking classification tools for scRNA-seq data
  ☆189Updated 3 years ago
• Olink-Proteomics / OlinkRPackage
  Olink R package: A collection of functions to facilitate analysis of proteomic data from Olink. The goal of this package is to help users…
  ☆121Updated last week
• hms-dbmi / scde
  R package for analyzing single-cell RNA-seq data
  ☆177Updated last year
• broadinstitute / ssGSEA2.0
  Single sample Gene Set Enrichment analysis (ssGSEA) and PTM Enrichment Analysis (PTM-SEA)
  ☆299Updated last month
• RGLab / MAST
  Tools and methods for analysis of single cell assay data in R
  ☆257Updated last month
• hemberg-lab / scRNA.seq.datasets
  Collection of public scRNA-Seq datasets used by our group
  ☆173Updated 4 years ago
• YeoLab / single-cell-bioinformatics
  Course material in notebook format for learning about single cell bioinformatics methods
  ☆99Updated 9 years ago
• kharchenkolab / conos
  R package for the joint analysis of multiple single-cell RNA-seq datasets
  ☆215Updated last year
• liulab-dfci / MAESTRO
  Single-cell Transcriptome and Regulome Analysis Pipeline
  ☆294Updated 2 years ago
• theislab / kBET
  An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.
  ☆169Updated last year
• HelenaLC / muscat
  Multi-sample multi-group scRNA-seq analysis tools
  ☆211Updated 2 weeks ago
• Irrationone / cellassign
  Automated, probabilistic assignment of cell types in scRNA-seq data
  ☆209Updated 2 years ago
• bioFAM / MOFA2
  Multi-Omics Factor Analysis
  ☆358Updated last year
• kharchenkolab / pagoda2
  R package for analyzing and interactively exploring large-scale single-cell RNA-seq datasets
  ☆239Updated 3 months ago
• crazyhottommy / scATACseq-analysis-notes
  my notes for scATACseq analysis
  ☆131Updated last year
• GreenleafLab / chromVAR
  chromatin Variability Across Regions (of the genome!)
  ☆182Updated last year
• scRNA-tools / scRNA-tools
  Table of software for the analysis of single-cell RNA-seq data.
  ☆332Updated this week
• asncd / MIMOSCA
  A repository for the design and analysis of pooled single cell RNA-seq perturbation experiments.
  ☆96Updated 6 years ago
• broadinstitute / ABC-Enhancer-Gene-Prediction
  Cell type specific enhancer-gene predictions using ABC model (Fulco, Nasser et al, Nature Genetics 2019)
  ☆239Updated 4 months ago
• pachterlab / kallistobustools
  kallisto | bustools workflow for pre-processing single-cell RNA-seq data
  ☆118Updated 3 years ago
• compbiomed / singleCellTK
  Interactively analyze single cell genomic data
  ☆184Updated last month
• broadinstitute / Drop-seq
  Java tools for analyzing Drop-seq data
  ☆130Updated last week
• xuranw / MuSiC
  Multi-subject Single Cell Deconvolution
  ☆275Updated last year