adtseq provides simple Rcpp methods to identify Antibody-Derived-Tags in single cell CITE/REAP-seq data
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Updated
Jun 21, 2019 - C++
adtseq provides simple Rcpp methods to identify Antibody-Derived-Tags in single cell CITE/REAP-seq data
Code and results from TotalSeqC antibody titration and pipeline benchmarking for CITE-seq experiments
Novel joint clustering method with scRNA-seq and CITE-seq data
Scripts related to bulkRNA-seq as well as single-cell CITE-seq and VDJ-seq data of Gearty et al. (2021)
A single-cell demultiplexing pipeline, the sharp (♯)
Maintained elsewhere. See README.
Tools for single-cell feature barcoding analysis
Material for Bioconductor 2023 workshop on interoperation with python
CITE-seq profiling of human PBMCs at baseline and activation conditions
Awesome single-cell CITE-sequencing Pipeline
experimental interface between R and scvi-tools
Project analyzing multi-omics genomics data from a COVID-19 study.
scAR (single-cell Ambient Remover) is a deep learning model for removal of the ambient signals in droplet-based single cell omics
Toolkit for highly memory efficient analysis of single-cell RNA-Seq, scATAC-Seq and CITE-Seq data. Analyze atlas scale datasets with millions of cells on laptop.
scPerturb: A resource and a python/R tool for single-cell perturbation data
A framework for simulation of spatially-resolved omics data using python
A Snakemake workflow for processing and visualizing (multimodal) sc/snRNA-seq data generated with 10X Genomics Kits or in the MTX matrix file format powered by the R package Seurat.
MultiModal Classifier Hierarchy (MMoCHi)
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