bwtool: a tool for bigWig files

bwtool: a tool for bigWig files

UNLABELLED BigWig files are a compressed, indexed, binary format for genome-wide signal data for calculations (e.g. GC percent) or experiments (e.g. ChIP-seq/RNA-seq read depth). bwtool is a tool designed to read bigWig files rapidly and efficiently, providing functionality for extracting data and summarizing it in several ways, globally or at specific regions. Additionally, the tool enables th...

MAFCO: A Compression Tool for MAF Files

In the last decade, the cost of genomic sequencing has been decreasing so much that researchers all over the world accumulate huge amounts of data for present and future use. These genomic data need to be efficiently stored, because storage cost is not decreasing as fast as the cost of sequencing. In order to overcome this problem, the most popular general-purpose compression tool, gzip, is usu...

Incl: A Tool to Analyze Include Files

Large C and C++ softwa¡e projects typically share common types, macros, and variables among modules via include files organized into hierarchies. Many of these hierarchies grow so complex that it is haed for programmers to figure out when a file must be included. Since including unused symbols is usually harmless, application code tends to include more files than required. Knowing when ñles are...

A Software Tool for Reading DICOM Directory Files

DICOMDIR directory files are useful in medical software applications because they allow organized access to images and information sets that come from radiological studies that are stored in conformance with the digital imaging and communication in medicine (DICOM) standard. During the medical application software development, specialized programming libraries are commonly used in order to solv...

A Tool for Simplifying Files of ACL2 De nitions