ACT specifications


Unique identifier OMICS_16696
Name ACT
Alternative name Aggregation and Correlation Toolbox
Software type Toolkit/Suite
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Java, Python
Computer skills Advanced
Stability Stable
Source code URL
Maintained Yes


No version available



  • person_outline Mark Gerstein

Publication for Aggregation and Correlation Toolbox

ACT citations


The Meiotic Recombination Activator PRDM9 Trimethylates Both H3K36 and H3K4 at Recombination Hotspots In Vivo

PLoS Genet
PMCID: 4928815
PMID: 27362481
DOI: 10.1371/journal.pgen.1006146

[…] Analyses for the aggregation plots were carried out using the Aggregation and Correlation Toolbox (ACT, []. ACT parameters were: nbins = 500, mbins = 0, radius = 1500. H3K4me3 peaks inside and outside known hotspots were determined u […]


PRDM9 Drives Evolutionary Erosion of Hotspots in Mus musculus through Haplotype Specific Initiation of Meiotic Recombination

PLoS Genet
PMCID: 4287450
PMID: 25568937
DOI: 10.1371/journal.pgen.1004916

[…] e reference genome. Motifs were aligned to their respective PRDM9 zinc-finger array based on previously published alignments , .ChIP-seq tag densities were aggregated using the agg-py script from the Aggregation and Correlation Toolbox with nbins = 200 and radius = 1000 . […]

ACT institution(s)
Program in Computational Biology and Bioinformatics, Yale University, New Haven, CT, USA; Department of Molecular, Cellular and Developmental Biology, Yale University, New Haven, CT, USA; Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, CT, USA; Department of Computer Science and Engineering, The Chinese University of Hong Kong, Hong Kong; Department of Computer Science, Yale University, New Haven, CT, USA; Bioinformatics Program, Boston University, Boston, MA, USA; Program in Bioinformatics and Integrative Biology, University of Massachusetts Medical School, Worcester, MA, USA
ACT funding source(s)
Supported by National Institute of Health; A.L. Williams Professorship funds.

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