Packages with Software Mentions in Scientific Papers

pypi: spline

(s)hell oriented (p)ipe(line) tool for ci/cd
Papers that mentioned: 13

Very Likely Science (65)

pypi: UPnP

Forward a Port with UPnP and pure Python script
Papers that mentioned: 13

Very Likely Science (65)

pypi: popgen

Synthetic Population Generator 2.0
Papers that mentioned: 13

Very Likely Science (65)

pypi: StochPy

StochPy (Stochastic modeling in Python) provides several stochastic simulation algorithms to simulate (bio)chemical systems of reactions in a stochastic manner.
Papers that mentioned: 13

Very Likely Science (90)

pypi: Orpheus

An intelligent music retrieval engine
Papers that mentioned: 13

Likely Science (40)

pypi: ipad

A silly util package
Papers that mentioned: 13

Very Likely Science (65)

pypi: proc

Simple interface to Linux process information
Papers that mentioned: 13

Very Likely Science (65)

pypi: trackpy

particle-tracking toolkit
Papers that mentioned: 13

Very Likely Science (100)

pypi: DecisionTree

A Python module for decision-tree based classification of multidimensional data
Papers that mentioned: 13

Likely Science (55)

pypi: c3d

A library for manipulating C3D binary files
Papers that mentioned: 13

Very Likely Science (100)

cran: DTComPair

Comparison of Binary Diagnostic Tests in a Paired Study Design
Papers that mentioned: 13

Very Likely Science (75)

pypi: cobweb

A scaffold for building and deploying powerful and robust webapps
Papers that mentioned: 13

Very Likely Science (65)

cran: RGCCA

Regularized and Sparse Generalized Canonical Correlation Analysis for Multiblock Data
Papers that mentioned: 13

Very Likely Science (85)

A mid stack Flask based framework that put structure in the file system. Features: Caching, Mailing, Storage, CSRF, recaptcha, Cors. Supports HTML, Markdown and Jade and more
Papers that mentioned: 13

Very Likely Science (65)

pypi: dipy

Diffusion MRI utilities in python
Papers that mentioned: 13

Very Likely Science (80)

bioconductor: affxparser

Affymetrix File Parsing SDK
Papers that mentioned: 13

Very Likely Science (100)

cran: PDE

Extract Tables and Sentences from PDFs with User Interface
Papers that mentioned: 13

Very Likely Science (75)

cran: BSL

Bayesian Synthetic Likelihood
Papers that mentioned: 13

Very Likely Science (93)

cran: MAPA

Multiple Aggregation Prediction Algorithm
Papers that mentioned: 13

Very Likely Science (85)

cran: leaflet

Create Interactive Web Maps with the JavaScript 'Leaflet' Library
Papers that mentioned: 13

Very Likely Science (100)

pypi: mimics

Small tool for deferring actions and operations on objects and classes
Papers that mentioned: 13

Very Likely Science (65)

pypi: mlxtend

Machine Learning Library Extensions
Papers that mentioned: 13

Very Likely Science (100)

cran: likert

Analysis and Visualization Likert Items
Papers that mentioned: 13

Very Likely Science (100)

pypi: changepoint

A Bayesian change point library
Papers that mentioned: 13

Very Likely Science (100)

cran: MCSim

Determine the Optimal Number of Clusters
Papers that mentioned: 13

Very Likely Science (83)

cran: IntCal

Radiocarbon Calibration Curves
Papers that mentioned: 13

Very Likely Science (83)

bioconductor: copynumber

Segmentation of single- and multi-track copy number data by penalized least squares regression.
Papers that mentioned: 13

Very Likely Science (100)

pypi: assay

Future testing framework
Papers that mentioned: 13

Very Likely Science (80)

cran: ClassDiscovery

Classes and Methods for "Class Discovery" with Microarrays or Proteomics
Papers that mentioned: 13

Very Likely Science (85)

cran: ada

The R Package Ada for Stochastic Boosting
Papers that mentioned: 13

Very Likely Science (83)

pypi: OMM

Object Model Mapper for Python-based web apps and/or APIs
Papers that mentioned: 13

Very Likely Science (65)

pypi: pdf

Python library for parsing PDFs
Papers that mentioned: 13

Very Likely Science (65)

pypi: analytics

Library for efficiently adding analytics to your project.
Papers that mentioned: 13

Very Likely Science (60)

pypi: Starbucks

Unoffical Starbucks API.
Papers that mentioned: 13

Very Likely Science (65)

pypi: omics

omics: A Python package for omics data analysis.
Papers that mentioned: 13

Very Likely Science (75)

pypi: rast

Rast
Papers that mentioned: 13

Very Likely Science (65)

cran: BPM

Bayesian Purity Model to Estimate Tumor Purity
Papers that mentioned: 13

Very Likely Science (93)

bioconductor: iSEE

Interactive SummarizedExperiment Explorer
Papers that mentioned: 13

Very Likely Science (100)

bioconductor: affycomp

Graphics Toolbox for Assessment of Affymetrix Expression Measures
Papers that mentioned: 13

Very Likely Science (100)

cran: babel

Ribosome Profiling Data Analysis
Papers that mentioned: 13

Very Likely Science (93)

cran: MVR

Mean-Variance Regularization
Papers that mentioned: 13

Very Likely Science (99)

cran: csSAM

Papers that mentioned: 13

Unlikely Science (0)

cran: generalhoslem

Goodness of Fit Tests for Logistic Regression Models
Papers that mentioned: 13

Very Likely Science (93)

pypi: cons

An implementation of Lisp/Scheme-like cons in Python.
Papers that mentioned: 13

Very Likely Science (80)

bioconductor: SpidermiR

SpidermiR: An R/Bioconductor package for integrative network analysis with miRNA data
Papers that mentioned: 13

Very Likely Science (100)

bioconductor: scde

Single Cell Differential Expression
Papers that mentioned: 13

Very Likely Science (100)

cran: polysat

Tools for Polyploid Microsatellite Analysis
Papers that mentioned: 13

Very Likely Science (100)

cran: changepoint

Methods for Changepoint Detection
Papers that mentioned: 13

Very Likely Science (100)

pypi: kernel

UNKNOWN
Papers that mentioned: 13

Very Likely Science (80)

bioconductor: RnaSeqSampleSize

RnaSeqSampleSize
Papers that mentioned: 13

Very Likely Science (90)

cran: CHNOSZ

Thermodynamic Calculations and Diagrams for Geochemistry
Papers that mentioned: 13

Very Likely Science (85)

cran: SIRE

Finding Feedback Effects in SEM and Testing for Their Significance
Papers that mentioned: 13

Very Likely Science (75)

bioconductor: Rcpi

Molecular Informatics Toolkit for Compound-Protein Interaction in Drug Discovery
Papers that mentioned: 13

Very Likely Science (100)

cran: gmt

Interface Between GMT Map-Making Software and R
Papers that mentioned: 13

Very Likely Science (75)

bioconductor: RSVSim

RSVSim: an R/Bioconductor package for the simulation of structural variations
Papers that mentioned: 13

Very Likely Science (100)

bioconductor: EWCE

Expression Weighted Celltype Enrichment
Papers that mentioned: 13

Very Likely Science (100)

bioconductor: SPEM

S-system parameter estimation method
Papers that mentioned: 13

Very Likely Science (98)

pypi: clust

Optimised consensus clustering of multiple heterogeneous datasets
Papers that mentioned: 13

Very Likely Science (100)

pypi: MRS

MRS analysis software
Papers that mentioned: 13

Very Likely Science (100)

cran: emdbook

Support Functions and Data for "Ecological Models and Data"
Papers that mentioned: 13

Very Likely Science (85)

pypi: PAME

GUI for modeling nanoparticles on optical fiber with mixing/shell-filling models
Papers that mentioned: 13

Very Likely Science (90)

pypi: Jupiter

Useful J-related stuff.
Papers that mentioned: 13

Very Likely Science (65)

cran: pRF

Permutation Significance for Random Forests
Papers that mentioned: 13

Very Likely Science (83)

cran: EMMLi

A Maximum Likelihood Approach to the Analysis of Modularity
Papers that mentioned: 13

Very Likely Science (89)

bioconductor: metaMS

MS-based metabolomics annotation pipeline
Papers that mentioned: 13

Very Likely Science (75)

pypi: hmmlearn

Hidden Markov Models in Python with scikit-learn like API
Papers that mentioned: 13

Very Likely Science (100)

cran: FREQ

Estimate population size from capture frequencies
Papers that mentioned: 13

Very Likely Science (75)

bioconductor: miRNApath

miRNApath: Pathway Enrichment for miRNA Expression Data
Papers that mentioned: 13

Very Likely Science (100)

pypi: cron

cron
Papers that mentioned: 13

Very Likely Science (65)

cran: EValue

Sensitivity Analyses for Unmeasured Confounding and Other Biases in Observational Studies and Meta-Analyses
Papers that mentioned: 13

Very Likely Science (83)

pypi: Hawk

Easy setup tool for Rackspace Cloud Monitoring
Papers that mentioned: 13

Very Likely Science (65)

pypi: Zope

Zope application server / web framework
Papers that mentioned: 13

Very Likely Science (65)

pypi: dp

Automatically transform recursive functions to dynamic programming
Papers that mentioned: 13

Very Likely Science (65)

cran: R.utils

Various Programming Utilities
Papers that mentioned: 13

Very Likely Science (75)

bioconductor: ggcyto

Visualize Cytometry data with ggplot
Papers that mentioned: 13

Very Likely Science (100)

pypi: sensitivity

Python Sensitivity Analysis - Gradient DataFrames and Hex-Bin Plots
Papers that mentioned: 13

Very Likely Science (75)

cran: omics

'–omics' Data Analysis Toolbox
Papers that mentioned: 13

Very Likely Science (85)

pypi: expresso

A symbolic expression manipulation library.
Papers that mentioned: 13

Very Likely Science (90)

cran: FSM

Finite Selection Model
Papers that mentioned: 13

Very Likely Science (83)

pypi: graphmap

Images on a quad graph. Create an infinite canvas
Papers that mentioned: 13

Very Likely Science (65)

pypi: drawtree

Draw binary tree in plain text
Papers that mentioned: 13

Very Likely Science (100)

pypi: DBN

Decentralized Bluetooth Network
Papers that mentioned: 13

Very Likely Science (75)

cran: PopGenKit

Papers that mentioned: 13

Unlikely Science (0)

cran: sjmisc

Data and Variable Transformation Functions
Papers that mentioned: 13

Very Likely Science (100)

bioconductor: Chicago

CHiCAGO: Capture Hi-C Analysis of Genomic Organization
Papers that mentioned: 13

Very Likely Science (100)

cran: MAVE

Methods for Dimension Reduction
Papers that mentioned: 13

Very Likely Science (83)

bioconductor: motifbreakR

A Package For Predicting The Disruptiveness Of Single Nucleotide Polymorphisms On Transcription Factor Binding Sites
Papers that mentioned: 13

Very Likely Science (100)

bioconductor: COCOA

Coordinate Covariation Analysis
Papers that mentioned: 13

Very Likely Science (100)

pypi: gemma

simple data mapping tools
Papers that mentioned: 13

Very Likely Science (65)

bioconductor: GARS

GARS: Genetic Algorithm for the identification of Robust Subsets of variables in high-dimensional and challenging datasets
Papers that mentioned: 13

Very Likely Science (85)

cran: SpatialPack

Tools for Assessment the Association Between Two Spatial Processes
Papers that mentioned: 13

Very Likely Science (75)

pypi: Orange3

Orange, a component-based data mining framework.
Papers that mentioned: 13

Very Likely Science (100)

pypi: pingouin

Pingouin: statistical package for Python
Papers that mentioned: 13

Very Likely Science (90)

cran: sirt

Supplementary Item Response Theory Models
Papers that mentioned: 13

Very Likely Science (83)

cran: TTR

Technical Trading Rules
Papers that mentioned: 13

Very Likely Science (75)

pypi: web2py

full-stack framework for rapid development and prototyping of secure database-driven web-based applications, written and programmable in Python.
Papers that mentioned: 13

Very Likely Science (65)

cran: MaxentVariableSelection

Selecting the Best Set of Relevant Environmental Variables along with the Optimal Regularization Multiplier for Maxent Niche Modeling
Papers that mentioned: 13

Very Likely Science (85)

pypi: Arrays

Python library for storing and reading stored arrays.
Papers that mentioned: 13

Very Likely Science (65)

bioconductor: singscore

Rank-based single-sample gene set scoring method
Papers that mentioned: 13

Very Likely Science (100)

pypi: Bambino

Bambino
Papers that mentioned: 13

Very Likely Science (65)