Alternatives and similar repositories for scTCRseq

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

• antigenomics / vdjmatch
  ⚙️ Matching T-cell repertoire against a database of TCR antigen specificities
  ☆38Updated 6 years ago
• pachterlab / scRNA-Seq-TCC-prep
  Preprocessing of single-cell RNA-Seq (deprecated)
  ☆62Updated 6 years ago
• dan-landau / IronThrone-GoT
  processes GoT amplicon data and generates a table of metrics
  ☆31Updated 3 years ago
• HumanCellAtlas / skylab
  Soon to be deprecated in favor of broadinstitute/warp github repo. Previously: Secondary analysis pipelines
  ☆48Updated 5 months ago
• lanagarmire / SSrGE
  ☆34Updated 6 years ago
• epigen / crop-seq
  Data analysis scripts for Datlinger et. al, 2017 (doi:10.1038/nmeth.4177)
  ☆31Updated 7 years ago
• Teichlab / bracer
  BraCeR - reconstruction of B cell receptor sequences from single-cell RNAseq data
  ☆42Updated 11 months ago
• YosefLab / scone
  ☆55Updated 6 months ago
• caravagnalab / revolver
  Tumour stratification by maximum-likelihood repeated evolution from multi-region sequencing data
  ☆65Updated 2 years ago
• shenorrLabTRDF / bseqsc
  Bulk-Sequence Single-Cell Gene Expression Deconvolution Pipeline
  ☆46Updated 2 years ago
• rargelaguet / scnmt_gastrulation
  scNMT-seq gastrulation
  ☆42Updated 2 years ago
• GreenleafLab / motifmatchr
  Fast motif matching in R
  ☆46Updated last year
• AllonKleinLab / SPRING
  ☆69Updated 7 years ago
• icbi-lab / immune_deconvolution_benchmark
  Reproducible pipeline for "Comprehensive evaluation of cell-type quantification methods for immuno-oncology", Sturm et al. 2019, https://…
  ☆43Updated 5 years ago
• ambrosejcarr / seqc
  Single-Cell Sequencing Quality Control and Processing Software
  ☆30Updated 5 years ago
• mojaveazure / loomR
  An R-based interface for loom files
  ☆67Updated 5 years ago
• cole-trapnell-lab / cicero-release
  ☆59Updated 11 months ago
• rhondabacher / SCnorm
  Normalization for single cell RNA-seq data
  ☆48Updated 2 months ago
• broadinstitute / single_cell_classification
  Methods to use SNPs or gene expression to classify single cell RNAseq to reference profiles
  ☆29Updated 5 years ago
• bvieth / scRNA-seq-pipelines
  Compendium to "A Systematic Evaluation of Single Cell RNA-Seq Analysis Pipelines"
  ☆54Updated 4 years ago
• raphael-group / machina
  Framework for Metastatic And Clonal History INtegrative Analysis
  ☆36Updated 4 years ago
• indrops / indrops
  Pipeline for processing inDrops sequencing data
  ☆76Updated 6 years ago
• hemberg-lab / scfind
  ☆43Updated last year
• JEFworks / MUDAN
  Multi-sample Unified Discriminant ANalysis
  ☆74Updated 2 years ago
• WeiqiangZhou / BIRD
  Big data Regression for predicting DNase I hypersensitivity
  ☆30Updated last year
• sandhya212 / BISCUIT_SingleCell_IMM_ICML_2016
  R Codebase for BISCUIT: Infinite Mixture Model to cluster and impute single cells.
  ☆66Updated 7 years ago
• combiz / scFlow
  Single-cell/nuclei RNA-seq analysis tools in R for a complete workflow.
  ☆57Updated last year
• Neurosurgery-Brain-Tumor-Center-DiazLab / scell
  Single-CELL rna-seq analysis software
  ☆39Updated 7 years ago
• qinqian / lisa
  epigenome analysis to rank transcription factors
  ☆31Updated 2 years ago
• r3fang / snATAC
  <<------ Use SnapATAC!!
  ☆25Updated 6 years ago