scAmpi—A versatile pipeline for single-cell RNA-seq analysis from basics to clinics

• Anne Bertolini ,

  Roles Conceptualization, Methodology, Software, Visualization, Writing – original draft, Writing – review & editing

  ¶‡ These authors share first authorship on this work.

  Affiliations ETH Zurich, NEXUS Personalized Health Technologies, Zurich, Switzerland, SIB Swiss Institute of Bioinformatics, Zurich, Switzerland

  https://orcid.org/0000-0003-0691-0489

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• Michael Prummer ,

  Roles Conceptualization, Methodology, Software, Visualization, Writing – original draft, Writing – review & editing

  ¶‡ These authors share first authorship on this work.

  Affiliations ETH Zurich, NEXUS Personalized Health Technologies, Zurich, Switzerland, SIB Swiss Institute of Bioinformatics, Zurich, Switzerland

  https://orcid.org/0000-0001-9896-3929

  ⨯
• Mustafa Anil Tuncel,

  Roles Software, Writing – review & editing

  Affiliation ETH Zurich, Department of Biosystems Science and Engineering, Basel, Switzerland

  https://orcid.org/0000-0003-0317-2556

  ⨯
• Ulrike Menzel,

  Roles Methodology, Writing – review & editing

  Affiliation ETH Zurich, Department of Biosystems Science and Engineering, Basel, Switzerland

  https://orcid.org/0000-0002-9956-3043

  ⨯
• María Lourdes Rosano-González,

  Roles Software, Writing – review & editing

  Affiliations ETH Zurich, NEXUS Personalized Health Technologies, Zurich, Switzerland, SIB Swiss Institute of Bioinformatics, Zurich, Switzerland

  https://orcid.org/0000-0002-6247-5728

  ⨯
• Jack Kuipers,

  Roles Conceptualization, Methodology, Supervision, Writing – review & editing

  Affiliations SIB Swiss Institute of Bioinformatics, Zurich, Switzerland, ETH Zurich, Department of Biosystems Science and Engineering, Basel, Switzerland

  https://orcid.org/0000-0001-5357-2705

  ⨯
• Daniel Johannes Stekhoven,

  Roles Funding acquisition, Resources, Writing – review & editing

  Affiliations ETH Zurich, NEXUS Personalized Health Technologies, Zurich, Switzerland, SIB Swiss Institute of Bioinformatics, Zurich, Switzerland

  https://orcid.org/0000-0003-3163-3161

  ⨯
• Tumor Profiler consortium ,

  ¶Membership of Tumor Profiler consortium is provided in the Acknowledgments.

  ⨯
• Niko Beerenwinkel,

  Roles Conceptualization, Funding acquisition, Project administration, Resources, Writing – review & editing

  Affiliations SIB Swiss Institute of Bioinformatics, Zurich, Switzerland, ETH Zurich, Department of Biosystems Science and Engineering, Basel, Switzerland

  https://orcid.org/0000-0002-0573-6119

  ⨯
• Franziska Singer

  Roles Conceptualization, Methodology, Project administration, Software, Supervision, Visualization, Writing – original draft, Writing – review & editing

  * E-mail: singer@nexus.ethz.ch

  Affiliations ETH Zurich, NEXUS Personalized Health Technologies, Zurich, Switzerland, SIB Swiss Institute of Bioinformatics, Zurich, Switzerland

  https://orcid.org/0000-0002-6017-1595

  ⨯