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Deeplearning4j can be used via multiple API languages including Java, Scala, Python, Clojure and Kotlin. Its Scala API is called ScalNet. [31] Keras serves as its Python API. [32] And its Clojure wrapper is known as DL4CLJ. [33] The core languages performing the large-scale mathematical operations necessary for deep learning are C, C++ and CUDA C.
In addition to standard neural networks, Keras has support for convolutional and recurrent neural networks. It supports other common utility layers like dropout, batch normalization, and pooling. [12] Keras allows users to produce deep models on smartphones (iOS and Android), on the web, or on the Java Virtual Machine. [8]
Shannon's diagram of a general communications system, showing the process by which a message sent becomes the message received (possibly corrupted by noise). seq2seq is an approach to machine translation (or more generally, sequence transduction) with roots in information theory, where communication is understood as an encode-transmit-decode process, and machine translation can be studied as a ...
ArgoUML is an UML diagramming application written in Java and released under the open source Eclipse Public License. By virtue of being a Java application, it is available on any platform supported by Java SE.
Accepts all common read formats, and outputs read counts, coverage, and FPKM values per reference sequence. Open-source, written in pure Java; supports all platforms with no recompilation and no other dependencies. Distributed with BBMap. (Seal - Sequence Expression AnaLyzer - is unrelated to the SEAL distributed short-read aligner.)
Software for ultra fast local DNA sequence motif search and pairwise alignment for NGS data (FASTA, FASTQ). DNA: Hepperle D (www.sequentix.de) 2020 Genoogle Genoogle uses indexing and parallel processing techniques for searching DNA and Proteins sequences. It is developed in Java and open source. Both: Albrecht F: 2015 HMMER
Development environments include the Eclipse Java development tools (JDT) for Java and Scala, Eclipse CDT for C/C++, and Eclipse PDT for PHP, among others. [10] The initial codebase originated from IBM VisualAge. [11] The Eclipse software development kit (SDK), which includes the Java development tools, is meant for Java developers. Users can ...
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 ...