Alternatives and similar repositories for quanTIseq

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

• PCAWG-11 / Heterogeneity
  Code accompanying Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes
  ☆43Updated 4 years ago
• amf71 / cloneMap
  An R package to plot maps of clone distributions in somatic evolution
  ☆17Updated last year
• foreverdream2 / dysfunction_interaction_test
  ☆29Updated 6 years ago
• powellgenomicslab / DropletQC
  Nuclear fraction QC metric to detect empty droplets and damaged cells in scRNA-seq data
  ☆38Updated 3 years ago
• KChen-lab / MEDALT
  Inference of Minimal Event Distance Aneuploidy Lineage Tree based on single cell copy number profile
  ☆19Updated last year
• gxiaolab / scAllele
  ☆34Updated last year
• atakanekiz / CIPR-Package
  Cluster Identity Predictor (R package implementation)
  ☆20Updated 3 years ago
• ShixiangWang / Variants2Neoantigen
  A neoantigen calling pipeline begins from variants record file (MAF) (Not maintain now)
  ☆29Updated 5 years ago
• Neurosurgery-Brain-Tumor-Center-DiazLab / CONICS
  CONICS: COpy-Number analysis In single-Cell RNA-Sequencing
  ☆74Updated 2 years ago
• haniffalab / scRNA-seq_analysis
  Single cell RNA-seq analysis bundle
  ☆34Updated 5 years ago
• genome / scrna_mutations
  Supplementary data for Petti, et al 2019 scRNA mutation publication
  ☆16Updated 2 years ago
• Morriseylab / scExtras
  ☆13Updated 11 months ago
• satijalab / Integration2019
  ☆16Updated 6 years ago
• UPSUTER / GEMLI
  ☆32Updated 5 months ago
• McGranahanLab / TcellExTRECT
  ☆47Updated 5 months ago
• adoostparast / CellR
  CellR: single-cell RNA-Seq guided deconvolution of cellular composition from bulk-tissue RNA-Seq
  ☆18Updated 4 years ago
• icbi-lab / Immunophenogram
  ☆40Updated 7 years ago
• LTLA / batchelor
  Clone of the Bioconductor repository for the batchelor package.
  ☆16Updated 3 months ago
• shendurelab / single-cell-ko-screens
  Repository containing all code for secondary analysis in the manuscript "On the design of CRISPR-based single cell molecular screens", Hi…
  ☆26Updated 3 years ago
• wmacnair / psupertime
  psupertime is pseudotime ordering for single cell RNA-seq data with sequential labels
  ☆40Updated 2 years ago
• cansysbio / ConsensusTME
  ConsensusTME Gene Sets and R Script
  ☆39Updated last year
• broadinstitute / gtex-single-nucleus-reference
  Code repository for the snRNA-seq cross-tissue atlas project
  ☆20Updated 3 years ago
• jdekanter / CHETAH
  scRNA-seq cell type identification
  ☆43Updated 5 years ago
• wenweixiong / MARVEL
  ☆49Updated 10 months ago
• caleblareau / gchromVAR
  Cell type specific enrichments using finemapped variants and quantitative epigenetic data
  ☆45Updated last year
• Japrin / scPip
  A pipeline for scRNA-seq data analysis
  ☆14Updated 3 months ago
• FloWuenne / scFunctions
  Functions for single cell data analysis
  ☆32Updated 4 years ago
• shenorrLabTRDF / cellAlign
  ☆41Updated 4 years ago
• amcdavid / CellaRepertorium
  Methods for clustering and analyzing high-throughput single cell immune cell repertoires (RepSeq)
  ☆15Updated 3 years ago
• aet21 / EpiSCORE
  Epigenetic cell-type deconvolution from Single-Cell Omic Reference profiles
  ☆32Updated 2 months ago