NGSANE: a lightweight production informatics framework for high-throughput data analysis

NGSANE: a lightweight production informatics framework for high-throughput data analysis

SUMMARY The initial steps in the analysis of next-generation sequencing data can be automated by way of software 'pipelines'. However, individual components depreciate rapidly because of the evolving technology and analysis methods, often rendering entire versions of production informatics pipelines obsolete. Constructing pipelines from Linux bash commands enables the use of hot swappable modul...

Biomedical Informatics and Computational Biology for High-Throughput Data Analysis

The last few years have witnessed the emergence of several high-throughput (HTP) platforms that are based on the evolution of omic science through transcriptomics, proteomics, and metabolomics. With the huge data accumulation, the informatics and computational methods have become essential to understand the complexity of biomedical data. We lunched the special issue to address the demand for st...

Genome Informatics for High - Throughput Sequencing

High-throughput neuro-imaging informatics

This paper describes neuroinformatics technologies at 1 mm anatomical scale based on high-throughput 3D functional and structural imaging technologies of the human brain. The core is an abstract pipeline for converting functional and structural imagery into their high-dimensional neuroinformatic representation index containing O(1000-10,000) discriminating dimensions. The pipeline is based on a...

A Lightweight Framework for Exchanging Web Data

We propose a lightweight framework for data exchange that is suitable for non-expert and casual users sharing data on the Web and/or through peer-to-peer systems. Unlike previous work, we consider a minimalistic data model and schema formalism that are suitable for describing online data and propose algorithms for mapping such schemas as well as for translating the corresponding instances. Also...