Journal of Computer Science & Systems Biology

Pirola Alessandra

Publications

• Research Article
  SAM-Profiler: A Graphical Tool for Qualitative Profiling of Next Generation Sequencing Alignment Data
  Author(s): Flora Francesco, Pirola Alessandra, Spinelli Roberta, Redaelli Sara, Valletta Simona, Gambacorti Passerini Carlo and Piazza RoccoFlora Francesco, Pirola Alessandra, Spinelli Roberta, Redaelli Sara, Valletta Simona, Gambacorti Passerini Carlo and Piazza Rocco
  
  SAM/BAM alignment file formats are extensively used in virtually all the laboratories devoted to high-throughput sequencing. However, limited effort has been yet dedicated to the development of SAM/BAM quality reporting tools. To overcome this problem, we developed SAM-Profiler, a multiplatform tool dedicated to the advanced quality reporting of SAM/BAM files. SAM-Profiler performs qualitative analysis of SAM/BAM alignment data in the context of next-generation sequencing. It is implemented in C# and can be run under Windows, Linux and MacOS operative systems. Two versions are available: fully graphical, event-driven software and a command-line tool. SAM-Profiler is able to generate an extensive set of qualitative reports on SAM/BAM alignment data, among them: overall, per-base and per-chromosome read quality, mapping quality, duplicate and coverage analys.. Read More»
  DOI: 10.4172/jcsb.1000116

  Abstract PDF