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EricScript specifications


Unique identifier OMICS_07348
Name EricScript
Alternative name chimEric tranScript detection algorithm
Software type Framework/Library
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Perl, R, Shell (Bash)
License GNU General Public License version 2.0
Computer skills Advanced
Version 0.5.1
Stability Stable
ada, BWA, SAMtools, Bedtools, seqtk, BLAT
Maintained Yes




No version available


  • person_outline Matteo Benelli

Publication for chimEric tranScript detection algorithm

EricScript citations


Driver Fusions and Their Implications in the Development and Treatment of Human Cancers

Cell Rep
PMCID: 5916809
PMID: 29617662
DOI: 10.1016/j.celrep.2018.03.050
call_split See protocol

[…] cs Cloud ( For each sample, the fastq file was mapped to the human genome (build 38) followed by fusion calling using STAR-Fusion (parameters:–annotation–coding-effect), EricScript (default parameters) ( and BREAKFAST (two different minimum distance cut-offs were used: 5 kb and 100 kb) ( […]


Absence of Correlation between Chimeric RNA and Aging

PMCID: 5748704
PMID: 29240691
DOI: 10.3390/genes8120386
call_split See protocol

[…] oolkit ( was used for filtering off low-quality reads. Paired end sequencing reads were mapped to Human genome version hg19 and analyzed using software tool, EricScript to identify candidate fusion RNAs []. Fusions with Ericscore less than 0.5 were filtered off. The occurrence and frequencies of candidate fusion RNAs were then correlated to gender, age, ra […]


Connections between Transcription Downstream of Genes and cis SAGe Chimeric RNA

PMCID: 5704251
PMID: 29165374
DOI: 10.3390/genes8110338
call_split See protocol

[…] We downloaded raw RNA-Seq data from study SRP058633, which contains three biological replicates of untreated cells or cells treated with 80 mM KCl for 1 h. Software Ericscript was used to identify candidate chimeric RNAs. A cut off of Ericscore at 0.5 was used. We then selected chimeric RNAs that were at least duplicated in each group. […]


Statistical algorithms improve accuracy of gene fusion detection

Nucleic Acids Res
PMCID: 5737606
PMID: 28541529
DOI: 10.1093/nar/gkx453
call_split See protocol

[…] -Fusion/STAR-Fusion/wikiWe used the following output files: for STAR-Fusion: *; for SOAPfuse: *final.Fusion.specific.for.transWe used filtered results from EricScript 0.5.5 Ensemble version 73 per the user manual from: […]


chimeraviz: a tool for visualizing chimeric RNA

PMCID: 5870674
PMID: 28525538
DOI: 10.1093/bioinformatics/btx329

[…] Using chimeraviz, the user can import data from nine fusion-finders: deFuse (), EricScript (), InFusion (), JAFFA (), FusionCatcher (), FusionMap (), PRADA (), SOAPfuse () and STAR-FUSION (). With transcript annotation data from Ensembl and aligned RNA-sequencing data in a .BAM f […]


On the evaluation of the fidelity of supervised classifiers in the prediction of chimeric RNAs

BioData Min
PMCID: 5090896
PMID: 27822312
DOI: 10.1186/s13040-016-0112-6

[…] the available gene fusion-finders methods [, ] do not explore the potentials of applying ML techniques to this classification problem. As far as we are aware of, only two gene fusion-finders, namely EricScript [] and deFuse [], have explored AdaBoost. AdaBoost generates a set of hypotheses and combines them through weighted majority voting of the classes predicted by the individual hypotheses. Th […]


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EricScript institution(s)
Diagnostic Genetic Unit, Laboratory Department, Careggi University Hospital, Florence, Italy

EricScript review

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Shailesh Kumar

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This is a very good tool to find the fusion transcripts in RNA-Seq datasets. I have cited this tool in my publications. We have analysed 10,000 paired-end RNA-Seq datasets with this tool. Very useful.