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BLAST output parsers: MuSeqBox, Zerg, BioParser, BLAST-Explorer, SequenceServer; specialized BLAST-related tools: MEGAN, BLAST2GENE, BOV, Circoletto; Example visualizations of BLAST results are shown in Figure 4 and 5. Fig. 4 Circos-style visualization of BLAST results generated using SequenceServer software.
BioJava is an open-source software project dedicated to provide Java tools to process biological data. [1] [2] [3] BioJava is a set of library functions written in the programming language Java for manipulating sequences, protein structures, file parsers, Common Object Request Broker Architecture (CORBA) interoperability, Distributed Annotation System (DAS), access to AceDB, dynamic ...
Distributed with the latest version of BLAST, this wrapper facilitates parallelization of the algorithm on modern hybrid architectures with many nodes and many cores within each node. [2] Protein: Burdyshaw CE, Sawyer S, Horton MD, Brook RG, Rekapalli B: 2017 CS-BLAST: Sequence-context specific BLAST, more sensitive than BLAST, FASTA, and SSEARCH.
Although the FASTA format is most often used as input to formatdb, the use of ASN.1 is advantageous for those who are using ASN.1 as the common source for other formats such as the GenBank report. The opposite of operation of formatdb, extracting sequences from a blast formatted database, can be achieved by using the fastacmd program, which ...
The name of SAM came from Gabor Marth from University of Utah, who originally had a format under the same name but with a different syntax more similar to a BLAST output. [2] It is widely used for storing data, such as nucleotide sequences, generated by next generation sequencing technologies, and the standard has been broadened to include ...
Active service members are generally not paid in a government shutdown, despite continuing to report for duty. In the run up to a potential shutdown in September 2023, ...
JasperReports is an open source reporting library that can be embedded into any Java application. Features include: Scriptlets may accompany the report definition, [3] which the report definition can invoke at any point to perform additional processing. The scriptlet is built using Java, and has many hooks that can be invoked before or after ...
The agreement, which remained a secret for seven decades, is unveiled in a new book, "Jimmy: The Secret Life of James Dean." The star died in a car accident at age 24 in 1955.