DeFuse: gene fusion discovery using RNA-Seq. DeFuse is a software package for gene fusion discovery using RNA-Seq data.
The software uses clusters of discordant paired end alignments to inform a split read alignment analysis for finding fusion boundaries. A classifier trained on real fusions and false positives is applied to the assembled sequences. The software produces a fully annotated output for each predicted fusion. Cancer Genome Project. Affymetrix Power Tools. Affymetrix Power Tools (APT) Software Package Affymetrix Power Tools (APT) are a set of cross-platform command line programs that implement algorithms for analyzing and working with Affymetrix GeneChip® arrays.
APT is an open-source project licensed under the GNU General Public License (GPL). (Developers who need a non-GPL license may purchase a commercial license from Affymetrix.) APT programs are intended for "power users" who prefer programs that can be utilized in scripting environments and are sophisticated enough to handle the complexity of extra features and functionality. The vision is that APT provides a platform for developing and deploying new algorithms without waiting for the GUI implementations.
Home - TCGA. Read Finder. Wiggle format. The bigWig format is the recommended format for almost all graphing track needs (for more information, see the following wiki page).
The wiggle (WIG) format is an older format for display of dense, continuous data such as GC percent, probability scores, and transcriptome data. Wiggle data elements must be equally sized. The bedGraph format is also an older format used to display sparse data or data that contains elements of varying size. Worklog. Login. HGSC Bioinformatics.