[{"data":1,"prerenderedAt":-1},["ShallowReactive",2],{"doc-detail-117036-en":3,"doc-seo-117036-105":30,"detail-sidebar-cat-0-en-105":91},{"code":4,"msg":5,"data":6},0,"success",{"doc_id":7,"user_id":8,"nickname":9,"user_avatar":10,"doc_module":4,"category_id":11,"category_name":12,"doc_title":13,"doc_description":14,"doc_content":15,"file_id":16,"file_url":17,"file_type":18,"file_size":19,"view_count":4,"is_deleted":4,"is_public":20,"is_downloadable":20,"audit_status":20,"page_count":21,"language":22,"language_code":23,"site_id":24,"html_lang":23,"table_of_contents":25,"faqs":26,"seo_title":27,"seo_description":14,"update_tm":28,"read_time":29},117036,1649267921044,"Ava Thompson","https://us-avatar.wpscdn.com/avatar/1800007509477c92dfb?_k=1782875107921204101",6,"Technology","A toolbox of machine learning software to support microbiome analysis","The review presents a toolbox of machine learning software designed to support microbiome analysis, consolidating computational methods for microbiome workflows. It contextualizes how modern machine learning approaches can be applied to microbiome datasets, from data processing to model building and interpretation. The work is authored by an international team and published as an open-access Frontiers in Microbiology review, enabling broad access under Creative Commons Attribution terms.","TYPE Review  \nPUBLISHED 22 November 2023 DOI 10.3389/fmicb.2023.1250806  \nOPEN ACCESS  \nEDITED BY  \nAnastasis Oulas,  \nThe Cyprus Institute of Neurology and Genetics, Cyprus  \nREVIEWED BY  \nYu-Wei Wu,  \nTaipei Medical University, Taiwan Sergio Peignier,  \nInstitut National des Sciences Appliquées de Lyon (INSA Lyon), France  \n*CORRESPONDENCE  \nLaura Judith Marcos-Zambrano  \n [judith. marcos@imdea.org](judith. marcos@imdea.org)[ ](judith. marcos@imdea.org)Enrique Carrillo de Santa Pau  \n [enrique.carrillo@imdea.org](enrique.carrillo@imdea.org)  \n†These authors have contributed equally to this work  \nRECEIVED 30 June 2023  \nACCEPTED 11 September 2023  \nPUBLISHED 22 November 2023  \nCITATION  \nMarcos-Zambrano LJ, López-Molina VM, Bakir-Gungor B, Frohme M,  \nKaraduzovic-Hadziabdic K, Klammsteiner T, Ibrahimi E, Lahti L, Loncar-Turukalo T, Dhamo X, Simeon A, Nechyporenko A, Pio G, Przymus P, Sampri A, Trajkovik V, Lacruz-Pleguezuelos B, Aasmets O, Araujo R, Anagnostopoulos I, Aydemir Ö, Berland M, Calle ML, Ceci M, Duman H, Gündoğdu A, Havulinna AS, Kaka Bra KHN, Kalluci E, Karav S, Lode D, Lopes MB, May P, Nap B, Nedyalkova M, Paciência I, Pasic L, Pujolassos M, Shigdel R, Susín A, Thiele I, Truică C-O, Wilmes P, Yilmaz E, Yousef M, Claesson MJ, Truu J and Carrillo de Santa Pau E (2023) A toolbox of machine learning software to support microbiome analysis.  \nFront. Microbiol. 14:1250806 .  \ndoi: 10.3389/fmicb.2023.1250806  \nCOPYRIGHT  \n© 2023 Marcos-Zambrano, López-Molina, Bakir-Gungor, Frohme, KaraduzovicHadziabdic, Klammsteiner, Ibrahimi, Lahti, Loncar-Turukalo, Dhamo, Simeon, Nechyporenko, Pio, Przymus, Sampri, Trajkovik, Lacruz-Pleguezuelos, Aasmets, Araujo, Anagnostopoulos, Aydemir, Berland, Calle, Ceci, Duman, Gündoğdu, Havulinna, Kaka Bra, Kalluci, Karav, Lode, Lopes, May, Nap, Nedyalkova, Paciência, Pasic, Pujolassos, Shigdel, Susín, Thiele, Truică, Wilmes, Yilmaz, Yousef, Claesson, Truu and Carrillo de Santa Pau. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY) . The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.  \nA toolbox of machine learning software to support microbiome analysis  \nLaura Judith Marcos-Zambrano 1*, Víctor Manuel López-Molina 1, Burcu Bakir-Gungor 2†, Marcus Frohme3†,  \nKanita Karaduzovic-Hadziabdic4†, Thomas Klammsteiner 5†, Eliana Ibrahimi 6†, Leo Lahti7†, Tatjana Loncar-Turukalo 8†, Xhilda Dhamo 9†, Andrea Simeon 10†, Alina Nechyporenko3, 11†, Gianvito Pio 12, 13†, Piotr Przymus 14†, Alexia Sampri 15†, Vladimir Trajkovik 16†, Blanca Lacruz-Pleguezuelos 1,  \nOliver Aasmets 17, 18, Ricardo Araujo 19,  \nIoannis Anagnostopoulos 20, 21, Önder Aydemir 22, Magali Berland 23, M. Luz Calle 24, 25, Michelangelo Ceci 12, 13, Hatice Duman 26, Aycan Gündoğdu 27, 28, Aki S. Havulinna 29, 30,  \nKardokh Hama Najib Kaka Bra31, Eglantina Kalluci 9,  \nSercan Karav32, Daniel Lode3, Marta B. Lopes33, 34, Patrick May35, Bram Nap36, Miroslava Nedyalkova37, Inês Paciência38, 39,  \nLejla Pasic40, Meritxell Pujolassos 24, Rajesh Shigdel41, Antonio Susín42, Ines Thiele36, 43, Ciprian-Octavian Truică44, Paul Wilmes45, 46, Ercument Yilmaz47, Malik Yousef48, 49, Marcus Joakim Claesson43, 50, Jaak Truu31 and  \nEnrique Carrillo de Santa Pau 1* on behalf of ML4Microbiome  \n1Computational Biology Group, Precision Nutrition and Cancer Research Program, IMDEA Food Institute, Madrid, Spain, 2 Department of Computer Engineering, Abdullah Gül University, Kayseri, Türkiye, 3 Division Molecular Biotechnology and Functional Genomics, Technical University of Applied Sciences Wildau, Wildau, Germany, 4 Faculty of Engineering and Natural Sciences, International University of Sarajevo, Sarajevo, Bosnia an","cbCaiaoSKwRKNJcY","https://ap.wps.com/l/cbCaiaoSKwRKNJcY","pdf",2138264,1,20,"English","en",105,"# Toolbox overview\n## Machine learning software for microbiome workflows\n## Open-access review context","[{\"question\":\"What does the toolbox focus on for microbiome research?\",\"answer\":\"It focuses on machine learning software intended to support microbiome analysis workflows, helping researchers apply computational methods to microbiome data.\"},{\"question\":\"Is the article open access?\",\"answer\":\"Yes. It is an open-access article distributed under a Creative Commons Attribution (CC BY) license.\"},{\"question\":\"Where is the review published?\",\"answer\":\"The review is published in Frontiers in Microbiology (Front. Microbiol.), with the listed DOI: 10.3389/fmicb.2023.1250806.\"}]","A toolbox of machine learning software to support microbiome analysis | PDF",1785673274,50,{"code":4,"msg":31,"data":32},"ok",{"site_id":24,"language":23,"slug":33,"title":13,"keywords":34,"description":14,"schema_data":35,"social_meta":86,"head_meta":88,"extra_data":90,"updated_unix":28},"a-toolbox-of-machine-learning-software-to-support-microbiome-analysis","",{"@graph":36,"@context":85},[37,54,68],{"@type":38,"itemListElement":39},"BreadcrumbList",[40,44,48,51],{"item":41,"name":42,"@type":43,"position":20},"https://docshare.wps.com","Home","ListItem",{"item":45,"name":46,"@type":43,"position":47},"https://docshare.wps.com/document/","Document",2,{"item":49,"name":12,"@type":43,"position":50},"https://docshare.wps.com/document/technology/",3,{"item":52,"name":13,"@type":43,"position":53},"https://docshare.wps.com/document/a-toolbox-of-machine-learning-software-to-support-microbiome-analysis/117036/",4,{"url":52,"name":13,"@type":55,"author":56,"headline":13,"publisher":58,"fileFormat":61,"inLanguage":23,"description":14,"dateModified":62,"datePublished":62,"encodingFormat":61,"isAccessibleForFree":63,"interactionStatistic":64},"DigitalDocument",{"name":9,"@type":57},"Person",{"url":41,"name":59,"@type":60},"DocShare","Organization","application/pdf","2026-08-02",true,{"@type":65,"interactionType":66,"userInteractionCount":4},"InteractionCounter",{"@type":67},"ViewAction",{"@type":69,"mainEntity":70},"FAQPage",[71,77,81],{"name":72,"@type":73,"acceptedAnswer":74},"What does the toolbox focus on for microbiome research?","Question",{"text":75,"@type":76},"It focuses on machine learning software intended to support microbiome analysis workflows, helping researchers apply computational methods to microbiome data.","Answer",{"name":78,"@type":73,"acceptedAnswer":79},"Is the article open access?",{"text":80,"@type":76},"Yes. 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