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Updated: Mar 3, 2026

An Integrated Platform for Genome-wide Mapping of Chromatin States Using High-throughput ChIP-sequencing in Tumor Tissues
Published on: April 5, 2018
ChromoMapper: a new tool to quickly compare large genome assemblies
Elvira Toscano1,2, Elena Cimmino1,2, Angelo Boccia1
1CEINGE-Biotecnologie Avanzate "Franco Salvatore", Napoli 80145, Italy.
Motivation:
Quality assessment and assembly comparison are essential steps while assembling new genomes. Many tools for evaluating assemblies typically provide synthetic parameters representing assembly quality or overall features, while others provide long detailed files where it is not always easy to identify and visualize the regions of correspondence and difference among different chromosome assemblies.
Results:
Here we present ChromoMapper, a new tool which scans the output from QUAST, as well as other similar alignment description files, to quickly identify and display similarities and differences between the compared assemblies. It uses the information provided about aligned blocks, combined with additional annotations, to represent the main alignment regions at chromosomal or sub-chromosomal scale, highlighting similarities and collinearity between compared sequences, points of inconsistency, discontinuities, repeated regions and interruptions in the assembled sequences.
Availability And Implementation:
ChromoMapper is available at https://chromomapper.ceinge.unina.it/ and via Zenodo (https://doi.org/10.5281/zenodo.16778863).
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