Ibis protocols

Ibis specifications


Unique identifier OMICS_01151
Name Ibis
Alternative name Improved base identification system
Software type Application/Script
Interface Command line interface
Restrictions to use None
Input format INT or CIF with Bustard reads
Biological technology Illumina
Operating system Unix/Linux
Computer skills Advanced
Version 1.1.7
Stability Stable
Maintained Yes


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  • person_outline Janet Kelso <>

Publication for Improved base identification system

Ibis IN pipeline

PMCID: 4404591
PMID: 25887593
DOI: 10.1186/s13059-015-0627-z

[…] nine lanes over three runs on the illumina genome analyzer iix platform. eight lanes were single-end 76 bp (base pair) reads and a ninth lane was a 76 bp paired-end run. base calling was done using ibis [53] and mapping was performed with tophat2 [54], a spliced-read mapper which is built on top of the bowtie mapper [55]. reads were mapped to the human reference genome build hg19 (grch37). […]

Ibis institution(s)
Department of Evolutionary Genetics, Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
Ibis funding source(s)
Supported by a grant of the Max Plank Society.

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