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.

cran: forcats
Tools for Working with Categorical Variables (Factors)
Papers that mentioned: 33
bioconductor: BiSeq
Processing and analyzing bisulfite sequencing data
Papers that mentioned: 33
cran: data.table
Extension of 'data.frame'
Papers that mentioned: 33
cran: flexmix
Flexible Mixture Modeling
Papers that mentioned: 32
cran: AST
Age-Spatial-Temporal Model
Papers that mentioned: 32
pypi: treeio
A pure python parser for tree data format IO
Papers that mentioned: 32
bioconductor: iClusterPlus
Integrative clustering of multi-type genomic data
Papers that mentioned: 32
bioconductor: MutationalPatterns
Comprehensive genome-wide analysis of mutational processes
Papers that mentioned: 32
cran: profile
Read, Manipulate, and Write Profiler Data
Papers that mentioned: 32
pypi: fsl
Specification language for selecting files from directory tree
Papers that mentioned: 32
pypi: funannotate
funannotate: eukaryotic genome annotation pipeline
Papers that mentioned: 32
bioconductor: aCGH
Classes and functions for Array Comparative Genomic Hybridization data
Papers that mentioned: 32
pypi: BATS
https://github.com/ContaTP/BATS-Bayesian-Adaptive-Trial-Simulator
Papers that mentioned: 32
pypi: HAL
Powerful AI Framework
Papers that mentioned: 32
cran: ResourceSelection
Resource Selection (Probability) Functions for Use-Availability Data
Papers that mentioned: 32
cran: xtable
Export Tables to LaTeX or HTML
Papers that mentioned: 32
cran: NDP
Interactive Presentation for Working with Normal Distribution
Papers that mentioned: 32
cran: DataGraph
Export Data from 'R' to 'DataGraph'
Papers that mentioned: 32
cran: VSURF
Variable Selection Using Random Forests
Papers that mentioned: 32
pypi: Tachyon
Fast Sum Product Network Library
Papers that mentioned: 32
pypi: galaxy
Galaxy (http://galaxyproject.org/).
Papers that mentioned: 32
cran: mmod
Modern Measures of Population Differentiation
Papers that mentioned: 32
pypi: detection
A motion detector
Papers that mentioned: 32
cran: VCA
Variance Component Analysis
Papers that mentioned: 32
pypi: xtable
operate table format in console. console table, csv, json, yaml and markdown.
Papers that mentioned: 32
pypi: ingenuity

Papers that mentioned: 32
cran: SoDA
Functions and Examples for "Software for Data Analysis"
Papers that mentioned: 32
cran: jtools
Analysis and Presentation of Social Scientific Data
Papers that mentioned: 32
cran: TOSTER
Two One-Sided Tests (TOST) Equivalence Testing
Papers that mentioned: 32
bioconductor: treeio
Base Classes and Functions for Phylogenetic Tree Input and Output
Papers that mentioned: 32
pypi: autobuild
Linden Lab Automated Package Management and Build System
Papers that mentioned: 32
pypi: jtools
A Python module that aids filtering, formatting, and transforming JSON-like objects
Papers that mentioned: 32
pypi: JIT
This is a package for my just in time
Papers that mentioned: 32
pypi: sem
A Simulation Execution Manager for ns-3
Papers that mentioned: 32
cran: Iso
Functions to Perform Isotonic Regression
Papers that mentioned: 32
pypi: PIPS
Python Interior Point Solver
Papers that mentioned: 32
cran: glmm
Generalized Linear Mixed Models via Monte Carlo Likelihood Approximation
Papers that mentioned: 32
pypi: acpype
ACPYPE - AnteChamber PYthon Parser interfacE
Papers that mentioned: 32
pypi: MCP
A program to orchestrate Entellect Challenge bot matches.
Papers that mentioned: 32
pypi: 8
For future projects.
Papers that mentioned: 32
cran: metacoder
Tools for Parsing, Manipulating, and Graphing Taxonomic Abundance Data
Papers that mentioned: 32
pypi: scanner
Scanner is like Ruby's StringScanner
Papers that mentioned: 32
cran: sem
Structural Equation Models
Papers that mentioned: 32
cran: ineq
Measuring Inequality, Concentration, and Poverty
Papers that mentioned: 32
cran: mboost
Model-Based Boosting
Papers that mentioned: 32
pypi: AST
Conversion between protobuf3 and srcML.
Papers that mentioned: 32
pypi: Cactus
Static site generation and deployment.
Papers that mentioned: 32
pypi: graphviz
Simple Python interface for Graphviz
Papers that mentioned: 32
pypi: opm
OPM-Common Python bindings
Papers that mentioned: 32
cran: tnet
Weighted, Two-Mode, and Longitudinal Networks Analysis
Papers that mentioned: 32
cran: HS
Homogenous Segmentation for Spatial Lines Data
Papers that mentioned: 32
cran: ggExtra
Add Marginal Histograms to 'ggplot2', and More 'ggplot2' Enhancements
Papers that mentioned: 32
cran: PIPS
Predicted Interval Plots
Papers that mentioned: 32
bioconductor: SomaticSignatures
Somatic Signatures
Papers that mentioned: 32
cran: SEL
Semiparametric Elicitation
Papers that mentioned: 32
pypi: GroopM
Metagenomic binning suite
Papers that mentioned: 32
pypi: Optimus
Optimus is a static site builder using Jinja2, webassets and Babel.
Papers that mentioned: 32
pypi: ineq
Package to calculate and plot income distribution indexes
Papers that mentioned: 32
pypi: Mantid
A simple, multi-project issue tracker.
Papers that mentioned: 32
cran: NBPSeq
Negative Binomial Models for RNA-Sequencing Data
Papers that mentioned: 32
cran: BE
Bioequivalence Study Data Analysis
Papers that mentioned: 32
cran: BEACH
Biometric Exploratory Analysis Creation House
Papers that mentioned: 32
cran: MBA
Multilevel B-Spline Approximation
Papers that mentioned: 32
cran: SuperExactTest
Exact Test and Visualization of Multi-Set Intersections
Papers that mentioned: 32
pypi: tnet
Torch and torchnet like library for building and training neural networks in Theano
Papers that mentioned: 32
cran: MPN
Most Probable Number and Other Microbial Enumeration Techniques
Papers that mentioned: 31
pypi: CREDO
Package for benchmarking, profiling and analysis scientific modelling codes
Papers that mentioned: 31
cran: SRS
Scaling with Ranked Subsampling
Papers that mentioned: 31
cran: treemap
Treemap Visualization
Papers that mentioned: 31
cran: AID
Box-Cox Power Transformation
Papers that mentioned: 31
cran: blme
Bayesian Linear Mixed-Effects Models
Papers that mentioned: 31
bioconductor: QDNAseq
Quantitative DNA Sequencing for Chromosomal Aberrations
Papers that mentioned: 31
pypi: treemap
Treemap creator with interactive viewer - now with display of .coverage files
Papers that mentioned: 31
cran: TreePar
Estimating birth and death rates based on phylogenies
Papers that mentioned: 31
pypi: Solution
An amazing form solution
Papers that mentioned: 31
pypi: Extract
Extraction tool for model and observed data intercomparison
Papers that mentioned: 31
cran: LMERConvenienceFunctions
Model Selection and Post-Hoc Analysis for (G)LMER Models
Papers that mentioned: 31
pypi: b
ccccccccccc
Papers that mentioned: 31
pypi: MMTK
Molecular Modelling Toolkit
Papers that mentioned: 31
pypi: BDS

Papers that mentioned: 31
cran: venneuler
Venn and Euler Diagrams
Papers that mentioned: 31
pypi: Vertex
Divmod Vertex is the first implementation of the Q2Q protocol, which is a peer-to-peer communication protocol for establishing stream-based communication between named endpoints.
Papers that mentioned: 31
pypi: Integral
Integral: A backend-free numerical integration library for differential equations
Papers that mentioned: 31
cran: IAT
Cleaning and Visualizing Implicit Association Test (IAT) Data
Papers that mentioned: 31
pypi: mfp
my first package
Papers that mentioned: 31
cran: colorspace
A Toolbox for Manipulating and Assessing Colors and Palettes
Papers that mentioned: 31
cran: meme
Create Meme
Papers that mentioned: 31
cran: clusterSim
Searching for Optimal Clustering Procedure for a Data Set
Papers that mentioned: 31
cran: taxize
Taxonomic Information from Around the Web
Papers that mentioned: 31
cran: CircStats
Circular Statistics, from "Topics in Circular Statistics" (2001)
Papers that mentioned: 31
pypi: meme
Use the command line to generate memes on memegenerator.co
Papers that mentioned: 31
bioconductor: CEMiTool
Co-expression Modules identification Tool
Papers that mentioned: 31
pypi: mpi4py
Python bindings for MPI
Papers that mentioned: 31
pypi: Pattern
Web mining module for Python.
Papers that mentioned: 31
cran: plm
Linear Models for Panel Data
Papers that mentioned: 31
cran: ggbeeswarm
Categorical Scatter (Violin Point) Plots
Papers that mentioned: 31
pypi: colorspace
A small collection of hex-colors.
Papers that mentioned: 31
pypi: design
Generates various common web design elements. Borders, patterns, textures, gradients, etc.
Papers that mentioned: 31
cran: TopDom
An Efficient and Deterministic Method for Identifying Topological Domains in Genomes
Papers that mentioned: 31
bioconductor: affylmGUI
GUI for limma Package with Affymetrix Microarrays
Papers that mentioned: 30