Alternatives and similar repositories for scLVM

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

• davismcc / archive-scater
  An archived version of the scater repository, see https://github.com/davismcc/scater for the active version.
  ☆64Updated 7 years ago
• hms-dbmi / scde
  R package for analyzing single-cell RNA-seq data
  ☆175Updated last year
• AllonKleinLab / SPRING
  ☆68Updated 7 years ago
• YeoLab / single-cell-bioinformatics
  Course material in notebook format for learning about single cell bioinformatics methods
  ☆101Updated 9 years ago
• GreenleafLab / NucleoATAC
  nucleosome calling using ATAC-seq
  ☆106Updated 4 years ago
• sandhya212 / BISCUIT_SingleCell_IMM_ICML_2016
  R Codebase for BISCUIT: Infinite Mixture Model to cluster and impute single cells.
  ☆66Updated 7 years ago
• AllonMKlein / scrublet
  Detect doublets in single-cell RNA-seq data
  ☆85Updated 5 years ago
• hemberg-lab / scmap
  A tool for unsupervised projection of single cell RNA-seq data
  ☆96Updated 4 years ago
• csoneson / conquer_comparison
  Code for evaluation of differential expression methods in single-cell RNA-seq data
  ☆112Updated 4 years ago
• kharchenkolab / dropEst
  Pipeline for initial analysis of droplet-based single-cell RNA-seq data
  ☆91Updated 3 years ago
• Hoohm / dropSeqPipe
  A SingleCell RNASeq pre-processing snakemake workflow
  ☆149Updated 2 years ago
• jdblischak / singleCellSeq
  Batch effects and the effective design of single-cell gene expression studies
  ☆102Updated 5 years ago
• bvieth / powsimR
  Power analysis is essential to optimize the design of RNA-seq experiments and to assess and compare the power to detect differentially ex…
  ☆106Updated last year
• Teichlab / tracer
  TraCeR - reconstruction of T cell receptor sequences from single-cell RNAseq data
  ☆130Updated last year
• linnarsson-lab / loompy
  Python implementation of the Loom file format - http://loompy.org
  ☆144Updated 6 months ago
• vals / umis
  Tools for processing UMI RNA-tag data
  ☆130Updated 2 years ago
• mohuangx / SAVER
  Single-cell RNA-seq Gene Expression Recovery
  ☆109Updated 6 months ago
• YosefLab / scone
  ☆55Updated 4 months ago
• 10XGenomics / single-cell-3prime-paper
  ☆85Updated 4 years ago
• dynverse / dynverse
  A set of tools supporting the development, execution, and benchmarking of trajectory inference methods. 🌍
  ☆76Updated 4 years ago
• asncd / MIMOSCA
  A repository for the design and analysis of pooled single cell RNA-seq perturbation experiments.
  ☆90Updated 5 years ago
• Teichlab / embl-single-cell-course-2016
  Material for lecture at the EMBL Single Cell Course 2016
  ☆47Updated 9 years ago
• slowkow / tftargets
  Human transcription factor target genes from 6 databases in convenient R format.
  ☆86Updated 6 years ago
• srp33 / TCGA_RNASeq_Clinical
  ☆61Updated 4 years ago
• statgen / demuxlet
  Genetic multiplexing of barcoded single cell RNA-seq
  ☆127Updated 11 months ago
• iaconogi / bigSCale2
  Framework for clustering, phenotyping, pseudotiming and inferring gene regulatory networks from single cell data
  ☆104Updated last year
• indrops / indrops
  Pipeline for processing inDrops sequencing data
  ☆76Updated 6 years ago
• czbiohub-sf / tabula-muris
  Code and annotations for the Tabula Muris single-cell transcriptomic dataset.
  ☆192Updated 2 years ago
• tallulandrews / scRNASeqPipeline
  ☆118Updated 6 years ago
• aertslab / cisTopic
  cisTopic: Probabilistic modelling of cis-regulatory topics from single cell epigenomics data
  ☆140Updated last year