{"doi":"10.1093/nar/gku365","title":"deepTools: a flexible platform for exploring deep-sequencing data","abstract":"We present a Galaxy based web server for processing and visualizing deeply sequenced data. The web server's core functionality consists of a suite of newly developed tools, called deepTools, that enable users with little bioinformatic background to explore the results of their sequencing experiments in a standardized setting. Users can upload pre-processed files with continuous data in standard formats and generate heatmaps and summary plots in a straight-forward, yet highly customizable manner. In addition, we offer several tools for the analysis of files containing aligned reads and enable efficient and reproducible generation of normalized coverage files. As a modular and open-source platform, deepTools can easily be expanded and customized to future demands and developments. The deepTools webserver is freely available at http://deeptools.ie-freiburg.mpg.de and is accompanied by extensive documentation and tutorials aimed at conveying the principles of deep-sequencing data analysis. The web server can be used without registration. deepTools can be installed locally either stand-alone or as part of Galaxy.","journal":"Nucleic Acids Research","year":2014,"id":9788,"datarank":15.840928962028851,"base_score":8.31996102188653,"endowment":8.31996102188653,"self_citation_contribution":1.2479941532829795,"citation_network_contribution":14.592934808745872,"self_endowment_contribution":1.2479941532829795,"citer_contribution":14.592934808745872,"corpus_percentile":85.8,"corpus_rank":2403,"citation_count":4104,"citer_count":194,"citers_with_citation_signal":194,"citers_with_endowment":194,"datacite_reuse_total":0,"is_dataset":false,"is_oa":true,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":"2014-05-05","authors":[{"id":81214,"name":"Friederike Dündar","orcid":"0000-0002-2301-112X","position":1,"is_corresponding":false},{"id":81215,"name":"Sarah Diehl","orcid":null,"position":2,"is_corresponding":false},{"id":81217,"name":"Thomas Manke","orcid":"0000-0003-3702-0868","position":4,"is_corresponding":false},{"id":30115,"name":"Björn Grüning","orcid":"0000-0002-3079-6586","position":5,"is_corresponding":false},{"id":3590,"name":"Fidel Ramírez","orcid":"0000-0002-9142-417X","position":0,"is_corresponding":true}],"reference_count":7,"raw_metadata":{"citation_network_status":"fetched"},"created_at":"2026-03-01T18:20:47.508186Z","pmid":null,"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,"clinical_trials":[],"software_tools":[],"db_accessions":[],"linked_datasets":[],"topics":[]}