Jitterbug specifications


Unique identifier OMICS_10229
Name Jitterbug
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data The mandatory input files required by Jitterbug are a BAM file of reads mapped to the reference genome and the annotation of transposable elements in that reference in GFF format.
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes


No version available


  • person_outline Stephan Ossowski

Publication for Jitterbug

Jitterbug citation


Jitterbug: somatic and germline transposon insertion detection at single nucleotide resolution

BMC Genomics
PMCID: 4603299
PMID: 26459856
DOI: 10.1186/s12864-015-1975-5

[…] ncer Analysis of Whole-Genomes (PCAWG) project (analyzing 2500 cancer tumor-normal pairs), which are limited to a single alignment format due to high storage and computational demands.Here we present Jitterbug, a tool that identifies novel transposable element insertions in a sequenced sample with respect to a reference genome, based solely on the mapped reads in BAM format and the annotation of T […]

Jitterbug institution(s)
Genomic and Epigenomic Variation in Disease Group, Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology, Barcelona, Spain; Center for Research in Agricultural Genomics, CRAG (CSIC-IRTA-UAB-UB), Barcelona, Spain; Universitat Pompeu Fabra (UPF), Barcelona, Spain

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