Ecosyste.ms: Papers

An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.

Papers: 10.12688/f1000research.17548.2

https://doi.org/10.12688/f1000research.17548.2

Expanding the Orthologous Matrix (OMA) programmatic interfaces: REST API and the OmaDB packages for R and Python

Cited by: 8
Author(s): Klara Kaleb, Alex Warwick Vesztrocy, Adrian M. Altenhoff, Christophe Dessimoz
Published: over 5 years ago

Software Mentions 13

bioconductor: GenomicRanges
Representation and manipulation of genomic intervals
Papers that mentioned: 323
bioconductor: ggtree
an R package for visualization of tree and annotation data
Papers that mentioned: 474
bioconductor: OmaDB
R wrapper for the OMA REST API
Papers that mentioned: 2
bioconductor: topGO
Enrichment Analysis for Gene Ontology
Papers that mentioned: 652
cran: REST
RcmdrPlugin Easy Script Templates
Papers that mentioned: 1,757
cran: SPARQL
SPARQL client
Papers that mentioned: 660
pypi: DendroPy
A Python library for phylogenetics and phylogenetic computing: reading, writing, simulation, processing and manipulation of phylogenetic trees (phylogenies) and characters.
Papers that mentioned: 119
pypi: goatools
Python scripts to find enrichment of GO terms
Papers that mentioned: 24
pypi: html
simple, elegant HTML, XHTML and XML generation
Papers that mentioned: 2
pypi: omadb
Client to the OMA browser, using the REST API.
Papers that mentioned: 1
pypi: pandas
Powerful data structures for data analysis, time series, and statistics
Papers that mentioned: 640
pypi: pyham
A tool to analyse Hierarchical Orthologous Groups (HOGs)
Papers that mentioned: 3
pypi: pyoma
library to interact and build OMA hdf5 files
Papers that mentioned: 2