SUMMARY: Advances in high-throughput RNA sequencing have enabled more efficient detection of fusion transcripts, but the technology and associated software used for fusion detection from sequencing data often yield a high false discovery rate. Good prioritization of the results is important, and this can be helped by a visualization framework that automatically integrates RNA data with known genomic features. Here we present chimeraviz , a Bioconductor package that automates the creation of chimeric RNA visualizations. The package supports input from nine different fusion-finder tools: deFuse, EricScript, InFusion, JAFFA, FusionCatcher, FusionMap, PRADA, SOAPfuse and STAR-FUSION. AVAILABILITY AND IMPLEMENTATION: chimeraviz is an R package available via Bioconductor ( https://bioconductor.org/packages/release/bioc/html/chimeraviz.html ) under Artistic-2.0. Source code and support is available at GitHub ( https://github.com/stianlagstad/chimeraviz ). CONTACT: [email protected]. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.

Abstract Given a graph with nonnegative edge weights and a set D of node pairs, the 2‐ path network problem requires a minimum weight set of edges such that the induced subgraph contains a path with one or two edges connecting each pair in D . The problem is NP ‐hard. We present two integer programming models for the problem and study properties of associated polytopes, including cutting planes. Two approximation algorithms are suggested and analyzed. Some computational experience is reported. © 2004 Wiley Periodicals, Inc.