zUMIs statistics

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Citations per year

Citations chart

Popular tool citations

chevron_left Read quality control Differential expression Read alignment UMI processing Known transcript quantification Spliced read alignment Normalization Transcript quantification Bioinformatics workflows chevron_right
Popular tools chart

Tool usage distribution map

Tool usage distribution map

Associated diseases

Associated diseases

zUMIs specifications


Unique identifier OMICS_19106
Name zUMIs
Software type Pipeline/Workflow
Interface Command line interface
Restrictions to use None
Input data A pair of files, whereas one file contains the cDNA sequences and the other one the read containing the BC and UMI.
Input format FASTQ
Output data Gene expression counts
Output format RDS
Biological technology Illumina
Operating system Unix/Linux
Programming languages Perl, R, Shell (Bash)
Computer skills Advanced
Version 1.0
Stability Stable
Maintained Yes



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  • person_outline Swati Parekh <>
  • person_outline Christoph Ziegenhain <>

Publication for zUMIs

zUMIs institution(s)
Anthropology & Human Genomics, Department of Biology II, Ludwig-Maximilians University, Munich, Germany
zUMIs funding source(s)
Supported by the DFG through SFB1243 subprojects A14/A15.

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