Alternatives and similar repositories for TCA

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

• caleblareau / gchromVAR
  Cell type specific enrichments using finemapped variants and quantitative epigenetic data
  ☆45Updated 2 years ago
• single-cell-genetics / limix_qtl
  ☆20Updated 2 months ago
• powellgenomicslab / onek1k_phase1
  Contains code to analyze the OneK1K data and perform eQTL mapping of 14 cell types
  ☆35Updated 4 years ago
• PCAWG-11 / Heterogeneity
  Code accompanying Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes
  ☆44Updated 4 years ago
• hakyimlab / gtex-gwas-analysis
  ☆24Updated 4 years ago
• saezlab / footprints
  Analysis code for "Perturbation-response genes reveal signaling footprints in cancer gene expression"
  ☆20Updated 7 years ago
• sjczheng / EpiDISH
  This package contains a reference-based function to infer the proportions of a priori known cell subtypes present in a sample representin…
  ☆54Updated 2 months ago
• McGranahanLab / TcellExTRECT
  ☆47Updated 9 months ago
• bsml320 / scGWAS
  A method which leverages scRNA-seq data to achieve two goals: (1) to infer the cell types in which the disease-associated genes manifest …
  ☆26Updated 3 years ago
• VCCRI / Sierra
  Discover differential transcript usage from polyA-captured single cell RNA-seq data
  ☆51Updated 2 years ago
• caleblareau / bap
  Bead-based single-cell atac processing
  ☆33Updated 3 years ago
• douglasyao / mesc
  Mediated Expression Score Regression (MESC)
  ☆26Updated 3 years ago
• fsvarn / GLASSx
  GLASS consortium
  ☆14Updated 3 years ago
• Morriseylab / scExtras
  ☆13Updated last year
• aet21 / EpiSCORE
  Epigenetic cell-type deconvolution from Single-Cell Omic Reference profiles
  ☆34Updated 6 months ago
• xqwen / fastenloc
  Colocalization analysis of genetic association signals
  ☆53Updated 4 months ago
• wenweixiong / MARVEL
  ☆51Updated last year
• dbrg77 / plate_scATAC-seq
  A rapid and robust plate-based single cell ATAC-seq (scATAC-seq) method
  ☆42Updated 4 years ago
• andreyshabalin / MatrixEQTL
  Matrix eQTL: Ultra fast eQTL analysis via large matrix operations
  ☆85Updated 2 years ago
• single-cell-genetics / cardelino
  Clone identification from single-cell data
  ☆61Updated 2 years ago
• Siliegia / SIGMA
  R package for SIGMA, a clusterability measure for scRNA-seq data
  ☆12Updated 3 years ago
• Simon-Leonard / FlexDotPlot
  R package for Flexible dot plots
  ☆29Updated 3 years ago
• jbryois / scRNA_disease
  Code for our paper: https://www.biorxiv.org/content/10.1101/528463v1
  ☆18Updated 5 years ago
• weizhou0 / SAIGEQTL
  ☆30Updated last month
• dcalderon / rolypoly
  Method for identifying trait-relevant gene annotations from GWAS summary statistics.
  ☆18Updated 3 years ago
• Kyoko-wtnb / FUMA_scRNA_data
  Descriptions/scripts for pre-process and processed data for FUMA cell specificity analyses (scRNA-seq)
  ☆24Updated 5 years ago
• humengying0907 / InstaPrism
  InstaPrism is an R package for fast implementation of BayesPrism
  ☆40Updated last year
• remap-cisreg / ReMapEnrich
  ReMapEnrich is a R-software package to identify significantly enriched regions from ReMap catalogues or user defined catalogues. ReMapEnr…
  ☆15Updated 3 years ago
• single-cell-genetics / singlecell_neuroseq_paper
  Population-scale single-cell RNA-seq profiling across dopaminergic neuron differentiation
  ☆21Updated last year
• 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