BATCH-GE statistics

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Citations per year

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Tool usage distribution map

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Associated diseases

Associated diseases

BATCH-GE specifications


Unique identifier OMICS_12977
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data NGS-derived sequencing data
Input format FASTQ, CSV, BED
Output data BATCH-GE generates a detailed report on genome editing efficiencies for every sample analysed, information about HDR and visualization of the reads in the UCSC Genome Browser.
Output format TXT
Operating system Unix/Linux
Programming languages C, Java, Javascript, Perl, Shell (Bash)
License Other
Computer skills Advanced
Stability Stable
Maintained Yes



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  • person_outline Andy Willaert <>
  • person_outline Wouter Steyaert <>

Publications for BATCH-GE

BATCH-GE in publications

PMCID: 5709416
PMID: 29192200
DOI: 10.1038/s41598-017-16932-y

[…] ready mix (kk5702, kapa biosystems). pcr products were subsequently sequenced on an illumina miseq platform according to de leeneer et al.. for amplicons from dna extracted from pools of cells, batch-ge generated a detailed overview on genome editing efficiency and the detected indel variants after ngs. the region of interest for cas9 nuclease and nickase was respectively defined […]

PMCID: 4254921
PMID: 25469514
DOI: 10.1371/journal.pone.0114130

[…] points., addresses were also georeferenced using ge. three approaches were followed: 1) one address at each time (single ge) in which the user can intervene and pinpoint the address; 2) in a batch (batch ge) using an application which assigns a code to each georeferenced address according to the ag accuracy (exact address, street centroid, building or residential complex centroid […]

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BATCH-GE institution(s)
Center for Medical Genetics, Ghent University Hospital, Ghent, Belgium; Center for Medical Genetics, Ghent University Hospital, Ghent, Belgium

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