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: 10.1186/s12859-017-1905-4

https://doi.org/10.1186/s12859-017-1905-4

ADAGE signature analysis: differential expression analysis with data-defined gene sets

Cited by: 15
Author(s): Jie Tan, Matthew Huyck, Dongbo Hu, René A. Zelaya, Deborah A. Hogan, Casey S. Greene
Published: about 7 years ago

Software Mentions 25

bioconductor: affy
Methods for Affymetrix Oligonucleotide Arrays
Papers that mentioned: 989
bioconductor: affyio
Tools for parsing Affymetrix data files
Papers that mentioned: 5
bioconductor: ArrayExpress
Access the ArrayExpress Collection at EMBL-EBI Biostudies and build Bioconductor data structures: ExpressionSet, AffyBatch, NChannelSet
Papers that mentioned: 1,962
bioconductor: limma
Linear Models for Microarray Data
Papers that mentioned: 7,776
bioconductor: preprocessCore
A collection of pre-processing functions
Papers that mentioned: 146
cran: corrplot
Visualization of a Correlation Matrix
Papers that mentioned: 1,077
cran: devtools
Tools to Make Developing R Packages Easier
Papers that mentioned: 157
cran: dplyr
A Grammar of Data Manipulation
Papers that mentioned: 1,213
cran: gplots
Various R Programming Tools for Plotting Data
Papers that mentioned: 2,122
cran: httr
Tools for Working with URLs and HTTP
Papers that mentioned: 25
cran: jsonlite
A Simple and Robust JSON Parser and Generator for R
Papers that mentioned: 36
cran: leaflet
Create Interactive Web Maps with the JavaScript 'Leaflet' Library
Papers that mentioned: 13
cran: magrittr
A Forward-Pipe Operator for R
Papers that mentioned: 107
cran: plotly
Create Interactive Web Graphics via 'plotly.js'
Papers that mentioned: 163
cran: readr
Read Rectangular Text Data
Papers that mentioned: 80
cran: reshape2
Flexibly Reshape Data: A Reboot of the Reshape Package
Papers that mentioned: 421
cran: R.utils
Various Programming Utilities
Papers that mentioned: 13
cran: tibble
Simple Data Frames
Papers that mentioned: 47
cran: visNetwork
Network Visualization using 'vis.js' Library
Papers that mentioned: 49
pypi: Analyze
Analyze is a python library that provides comprehensive statistical analysis of a dataframe in 5 lines of code. It creates significant insight for data scientists, analysts and machine learning engineers, enabling quick understanding of a dataset.
Papers that mentioned: 615
pypi: data
Work with unicode/non-unicode data from files or strings uniformly.
Papers that mentioned: 33
pypi: devtools
Python's missing debug print command, and more.
Papers that mentioned: 157
pypi: Django
A high-level Python web framework that encourages rapid development and clean, pragmatic design.
Papers that mentioned: 155
pypi: leaflet
Dead simple I2P SAM library
Papers that mentioned: 13
pypi: plotly
An open-source, interactive data visualization library for Python
Papers that mentioned: 163