{"doi":"10.1016/j.xpro.2021.100699","title":"Protocol for executing and benchmarking eight computational doublet-detection methods in single-cell RNA sequencing data analysis","abstract":"The existence of doublets is a key confounder in single-cell RNA sequencing (scRNA-seq) data analysis. Computational techniques have been developed for detecting doublets from scRNA-seq data. We developed an R package DoubletCollection to integrate the installation and execution of eight doublet detection methods. DoubletCollection provides a unified interface to perform and visualize downstream analysis after doublet detection. Here, we present a protocol of using DoubletCollection to benchmark doublet-detection methods. This protocol can accommodate new doublet-detection methods in the fast-growing scRNA-seq field. For details on the use and execution of this protocol, please refer to Xi and Li (2020).","journal":"STAR Protocols","year":2021,"id":207587,"datarank":0.0,"base_score":0.0,"endowment":0.0,"self_citation_contribution":0.0,"citation_network_contribution":0.0,"self_endowment_contribution":0.0,"citer_contribution":0.0,"corpus_percentile":null,"corpus_rank":null,"citation_count":4,"citer_count":0,"citers_with_citation_signal":0,"citers_with_endowment":0,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":0.9437,"is_data_producer":false,"deposit_databanks":null,"is_oa":true,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":"2021-01-01","fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":86014,"name":"Jingyi Jessica Li","orcid":"0000-0002-9288-5648","position":1,"is_corresponding":false},{"id":242787,"name":"Nan Miles Xi","orcid":"0000-0003-3126-8838","position":0,"is_corresponding":true}],"reference_count":23,"raw_metadata":null,"created_at":"2026-07-18T23:51:49.715594Z","pmid":"34382023","pmcid":null,"fwci":null,"citation_percentile":null,"influential_citations":0,"oa_status":null,"license":null,"views":0,"total_file_size_bytes":0,"version_count":0,"fair_f":null,"fair_a":null,"fair_i":null,"fair_r":null,"fair_zscore":null,"fair_rationale":null,"fair_model":null,"fair_agent_version":null,"fair_fulltext_source":null,"fair_has_llm":null,"fair_computed_at":null,"clinical_trials":[],"software_tools":[],"db_accessions":[],"linked_datasets":[],"topics":[]}