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Client-side Javascript SVG viewer for annotated rooted trees. Also supports phylogenetic networks. Iroki [5] Automatic customization and visualization of phylogenetic trees. iTOL - interactive Tree Of Life [6] annotate trees with various types of data and export to various graphical formats; scriptable through a batch interface. Microreact [7]
JSON (JavaScript Object Notation, pronounced / ˈdʒeɪsən / or / ˈdʒeɪˌsɒn /) is an open standard file format and data interchange format that uses human-readable text to store and transmit data objects consisting of attribute–value pairs and arrays (or other serializable values).
JSON: No Smile Format Specification: Yes No Yes Partial (JSON Schema Proposal, other JSON schemas/IDLs) Partial (via JSON APIs implemented with Smile backend, on Jackson, Python) — SOAP: W3C: XML: Yes W3C Recommendations: SOAP/1.1 SOAP/1.2: Partial (Efficient XML Interchange, Binary XML, Fast Infoset, MTOM, XSD base64 data) Yes Built-in id ...
Hierarchical Data Format (HDF) is a set of file formats (HDF4, HDF5) designed to store and organize large amounts of data.Originally developed at the U.S. National Center for Supercomputing Applications, it is supported by The HDF Group, a non-profit corporation whose mission is to ensure continued development of HDF5 technologies and the continued accessibility of data stored in HDF.
spdx.dev. System Package Data Exchange (SPDX, formerly Software Package Data Exchange) is an open standard capable of representing systems with digital components as bills of materials (BOMs) [1]. First designed to describe software components, SPDX can describe the components of software systems, AI models, software builds, security data, and ...
Python. PyCharm – Cross-platform Python IDE with code inspections available for analyzing code on-the-fly in the editor and bulk analysis of the whole project. PyDev – Eclipse-based Python IDE with code analysis available on-the-fly in the editor or at save time. Pylint – Static code analyzer.
Clustal Omega, ClustalW2, MAFFT, MUSCLE, BioJava are integrated to construct alignment. Tree calculation tool calculates phylogenetic tree using BioJava API and lets user draw trees using Archaeopteryx. Software is package of 7 interactive visual tools for multiple sequence alignments. Major focus is manipulating large alignments.
JSONiq [11] is a query and transformation language for JSON. XPath 3.1 [12] is an expression language that allows the processing of values conforming to the XDM [13] data model. The version 3.1 of XPath supports JSON as well as XML. jq is like sed for JSON data - you can use it to slice and filter and map and transform structured data.