Alternatives and similar repositories for tracer

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

• pachterlab / kallistobustools
  kallisto | bustools workflow for pre-processing single-cell RNA-seq data
  ☆118Updated 3 years ago
• timoast / sinto
  Tools for single-cell data processing
  ☆126Updated last year
• broadinstitute / Drop-seq
  Java tools for analyzing Drop-seq data
  ☆130Updated last week
• saezlab / dorothea
  R package to access DoRothEA's regulons
  ☆150Updated last year
• immunoengineer / gliph
  Grouping of Lymphocyte Interactions by Paratope Hotspots
  ☆97Updated 4 years ago
• single-cell-genetics / cellsnp-lite
  Efficient genotyping bi-allelic SNPs on single cells
  ☆150Updated last year
• GreenleafLab / chromVAR
  chromatin Variability Across Regions (of the genome!)
  ☆181Updated last year
• TrinityCTAT / Trinity_CTAT
  ☆118Updated 2 years ago
• dviraran / xCell
  Cell types enrichment analysis
  ☆200Updated last year
• AllonMKlein / scrublet
  Detect doublets in single-cell RNA-seq data
  ☆85Updated 6 years ago
• kharchenkolab / dropEst
  Pipeline for initial analysis of droplet-based single-cell RNA-seq data
  ☆92Updated 3 years ago
• nsalomonis / altanalyze
  AltAnalyze is a multi-functional and easy-to-use software package for automated single-cell and bulk gene and splicing analyses. Easy-to-…
  ☆104Updated 3 years ago
• RabadanLab / arcasHLA
  Fast and accurate in silico inference of HLA genotypes from RNA-seq
  ☆140Updated last year
• Hoohm / CITE-seq-Count
  A tool that allows to get UMI counts from a single cell protein assay
  ☆82Updated 4 months ago
• phbradley / conga
  Clonotype Neighbor Graph Analysis
  ☆90Updated 3 weeks ago
• mikessh / vdjtools
  [Deprecated, see https://github.com/antigenomics/mirpy and other tools @antigenomics] Post-analysis of immune repertoire sequencing data
  ☆140Updated last year
• czbiohub-sf / tabula-muris
  Code and annotations for the Tabula Muris single-cell transcriptomic dataset.
  ☆192Updated 2 years ago
• bioinfo-ibms-pumc / SCSA
  SCSA: cell type annotation for single-cell RNA-seq data
  ☆91Updated 2 years ago
• caleblareau / mgatk
  mgatk: mitochondrial genome analysis toolkit
  ☆108Updated 7 months ago
• snakemake-workflows / single-cell-rna-seq
  A single cell RNA-seq workflow, including highly variable gene analysis, cell type assignment and differential expression analysis.
  ☆102Updated 2 years ago
• statgen / demuxlet
  Genetic multiplexing of barcoded single cell RNA-seq
  ☆129Updated last year
• zktuong / dandelion
  dandelion - A single cell BCR/TCR V(D)J-seq analysis package for 10X Chromium 5' data
  ☆118Updated last week
• BaderLab / CellAnnotationTutorial
  Accompanying code for the tutorial: Annotating single cell transcriptomic maps using automated and manual methods
  ☆97Updated 2 years ago
• asncd / MIMOSCA
  A repository for the design and analysis of pooled single cell RNA-seq perturbation experiments.
  ☆95Updated 6 years ago
• PierreBSC / Viral-Track
  ☆62Updated 5 years ago
• mhorlbeck / ScreenProcessing
  ☆65Updated 2 years ago
• hemberg-lab / scmap
  A tool for unsupervised projection of single cell RNA-seq data
  ☆95Updated 4 years ago
• wheaton5 / souporcell
  Clustering scRNAseq by genotypes
  ☆189Updated 10 months ago
• aertslab / cisTopic
  cisTopic: Probabilistic modelling of cis-regulatory topics from single cell epigenomics data
  ☆141Updated last year
• AllonKleinLab / SPRING
  ☆69Updated 7 years ago