Packages with Software Mentions in Scientific Papers

cran: RMySQL

Database Interface and 'MySQL' Driver for R
Papers that mentioned: 24

Very Likely Science (83)

pypi: vmd

Terminal Markdown Renderer
Papers that mentioned: 24

Very Likely Science (90)

pypi: GDM

A language-agnostic
Papers that mentioned: 24

Very Likely Science (65)

cran: rsq

R-Squared and Related Measures
Papers that mentioned: 24

Very Likely Science (83)

cran: RPANDA

Phylogenetic ANalyses of DiversificAtion
Papers that mentioned: 24

Very Likely Science (85)

pypi: ProtoNet

A lightweight, versatile framework for easy neural net prototyping and research
Papers that mentioned: 24

Very Likely Science (75)

pypi: umap

UNIST synthesis MAP solution
Papers that mentioned: 24

Very Likely Science (65)

cran: TMB

Template Model Builder: A General Random Effect Tool Inspired by 'ADMB'
Papers that mentioned: 24

Very Likely Science (100)

cran: Signac

Analysis of Single-Cell Chromatin Data
Papers that mentioned: 24

Very Likely Science (100)

cran: EnvStats

Package for Environmental Statistics, Including US EPA Guidance
Papers that mentioned: 24

Very Likely Science (85)

pypi: sciplot

Format Matplotlib scientific plots
Papers that mentioned: 24

Very Likely Science (100)

cran: RISmed

Download Content from NCBI Databases
Papers that mentioned: 24

Very Likely Science (75)

cran: pcalg

Methods for Graphical Models and Causal Inference
Papers that mentioned: 24

Very Likely Science (75)

pypi: kraken

OCR/HTR engine for all the languages
Papers that mentioned: 24

Very Likely Science (80)

cran: sciplot

Scientific Graphing Functions for Factorial Designs
Papers that mentioned: 24

Very Likely Science (93)

cran: GRAPE

Gene-Ranking Analysis of Pathway Expression
Papers that mentioned: 24

Very Likely Science (93)

cran: ggspatial

Spatial Data Framework for ggplot2
Papers that mentioned: 24

Very Likely Science (77)

pypi: Comix

A GTK+ comic book viewer for .cbz, .cbr and .cbt files.
Papers that mentioned: 24

Very Likely Science (80)

cran: ggforce

Accelerating 'ggplot2'
Papers that mentioned: 24

Very Likely Science (99)

cran: effectsize

Indices of Effect Size
Papers that mentioned: 24

Very Likely Science (100)

pypi: PRC

Python Remote Console
Papers that mentioned: 24

Very Likely Science (65)

cran: corpcor

Efficient Estimation of Covariance and (Partial) Correlation
Papers that mentioned: 24

Very Likely Science (90)

pypi: Pass

The pythonic awesome stylesheet language
Papers that mentioned: 24

Very Likely Science (65)

cran: NPC

Nonparametric Combination of Hypothesis Tests
Papers that mentioned: 24

Very Likely Science (75)

cran: hyperSpec

Work with Hyperspectral Data, i.e. Spectra + Meta Information (Spatial, Time, Concentration, ...)
Papers that mentioned: 24

Very Likely Science (95)

pypi: MCML

Semi-supervised Dimensionality Reduction for Multi-Class, Multi-Label Data
Papers that mentioned: 24

Very Likely Science (100)

cran: MTE

Maximum Tangent Likelihood Estimation for Robust Linear Regression and Variable Selection
Papers that mentioned: 24

Very Likely Science (93)

cran: umap

Uniform Manifold Approximation and Projection
Papers that mentioned: 24

Very Likely Science (81)

pypi: arcgis

ArcGIS API for Python
Papers that mentioned: 24

Very Likely Science (90)

pypi: primer3plus

An easy-to-use Python API for Primer3 primer design.
Papers that mentioned: 24

Very Likely Science (100)

cran: vmd

Variational Mode Decomposition
Papers that mentioned: 24

Very Likely Science (100)

cran: optmatch

Functions for Optimal Matching
Papers that mentioned: 23

Very Likely Science (100)

cran: statcheck

Extract Statistics from Articles and Recompute P-Values
Papers that mentioned: 23

Very Likely Science (85)

cran: SOFIA

Making Sophisticated and Aesthetical Figures in R
Papers that mentioned: 23

Very Likely Science (83)

pypi: lhs

Latin hypercube sampler for scenario modelling
Papers that mentioned: 23

Very Likely Science (90)

cran: spaMM

Mixed-Effect Models, with or without Spatial Random Effects
Papers that mentioned: 23

Very Likely Science (75)

pypi: GGA

Interact with Georgia General Assembly website data
Papers that mentioned: 23

Likely Science (40)

pypi: proml

Add a short description here!
Papers that mentioned: 23

Very Likely Science (100)

cran: MethComp

Analysis of Agreement in Method Comparison Studies
Papers that mentioned: 23

Very Likely Science (85)

pypi: xds

Loading xds structure
Papers that mentioned: 23

Very Likely Science (65)

pypi: CSIA

CRISPR Sequence Indel Analyze
Papers that mentioned: 23

Very Likely Science (65)

pypi: scikit-allel

A Python package for exploring and analysing genetic variation data.
Papers that mentioned: 23

Very Likely Science (100)

pypi: pgls

CLI utility to display postgres database information as a tree.
Papers that mentioned: 23

Likely Science (40)

cran: nricens

NRI for Risk Prediction Models with Time to Event and Binary Response Data
Papers that mentioned: 23

Very Likely Science (83)

cran: CONCUR

Copy Number Profile Curve-Based Association Test
Papers that mentioned: 23

Very Likely Science (75)

cran: spls

Sparse Partial Least Squares (SPLS) Regression and Classification
Papers that mentioned: 23

Very Likely Science (85)

pypi: optmatch

command line parsing library
Papers that mentioned: 23

Very Likely Science (65)

cran: mapproj

Map Projections
Papers that mentioned: 23

Very Likely Science (75)

pypi: StarCluster

StarCluster is a utility for creating and managing computing clusters hosted on Amazon's Elastic Compute Cloud (EC2).
Papers that mentioned: 23

Likely Science (55)

pypi: pc

process control -- easy fork-exec and pipe with I/O redirection
Papers that mentioned: 23

Very Likely Science (65)

cran: fmri

Analysis of fMRI Experiments
Papers that mentioned: 23

Very Likely Science (85)

bioconductor: dupRadar

Assessment of duplication rates in RNA-Seq datasets
Papers that mentioned: 23

Very Likely Science (100)

cran: VAM

Variance-Adjusted Mahalanobis
Papers that mentioned: 23

Very Likely Science (93)

pypi: simulation

simulation functions
Papers that mentioned: 23

Very Likely Science (90)

cran: lhs

Latin Hypercube Samples
Papers that mentioned: 23

Very Likely Science (81)

cran: BRINDA

Computation of BRINDA Adjusted Micronutrient Biomarkers for Inflammation
Papers that mentioned: 23

Very Likely Science (97)

cran: KMsurv

Data sets from Klein and Moeschberger (1997), Survival Analysis
Papers that mentioned: 23

Very Likely Science (93)

cran: bootstrap

Functions for the Book "An Introduction to the Bootstrap"
Papers that mentioned: 23

Very Likely Science (75)

pypi: Assessor

Django Assessment App
Papers that mentioned: 23

Very Likely Science (65)

pypi: Gecko

A framework for building applications to communicate with Exosite
Papers that mentioned: 23

Very Likely Science (65)

pypi: bootstrap

Papers that mentioned: 23

Very Likely Science (65)

cran: MEGENA

Multiscale Clustering of Geometrical Network
Papers that mentioned: 23

Very Likely Science (100)

pypi: stan

Papers that mentioned: 23

Very Likely Science (65)

pypi: Checkpoint

Checkpoint is a simple media archive management system.
Papers that mentioned: 23

Very Likely Science (65)

cran: EMC

Papers that mentioned: 23

Unlikely Science (0)

cran: lbfgs

Limited-memory BFGS Optimization
Papers that mentioned: 23

Very Likely Science (93)

cran: tidygraph

A Tidy API for Graph Manipulation
Papers that mentioned: 23

Very Likely Science (75)

bioconductor: DeconRNASeq

Deconvolution of Heterogeneous Tissue Samples for mRNA-Seq data
Papers that mentioned: 23

Very Likely Science (90)

pypi: ctree

A C-family AST implementation designed to be an IR for DSL compilers.
Papers that mentioned: 23

Very Likely Science (65)

pypi: compare

Alternative syntax for comparing/asserting expressions in Python. Supports pluggable matchers for custom comparisons.
Papers that mentioned: 23

Very Likely Science (75)

cran: SIN

A SINful Approach to Selection of Gaussian Graphical Markov Models
Papers that mentioned: 23

Very Likely Science (75)

pypi: merge

A simple function of merge-sort
Papers that mentioned: 23

Very Likely Science (65)

bioconductor: gdsfmt

R Interface to CoreArray Genomic Data Structure (GDS) Files
Papers that mentioned: 23

Very Likely Science (100)

pypi: glimmer

Glimmer is a library built to implement content management systems for python web applications.
Papers that mentioned: 23

Unlikely Science (15)

pypi: time

Conversion of given time input into proper format
Papers that mentioned: 23

Very Likely Science (65)

pypi: BDT

Simple library to write decision trees
Papers that mentioned: 23

Very Likely Science (65)

cran: FSelector

Selecting Attributes
Papers that mentioned: 23

Very Likely Science (100)

pypi: ParmEd

Inter-package toolkit for molecular mechanical simulations
Papers that mentioned: 23

Very Likely Science (100)

pypi: annotation

Papers that mentioned: 23

Very Likely Science (65)

cran: mda

Mixture and Flexible Discriminant Analysis
Papers that mentioned: 23

Very Likely Science (93)

pypi: mda

Analysis Tools for MD Simulations
Papers that mentioned: 23

Very Likely Science (75)

pypi: flash

Fast tool
Papers that mentioned: 23

Very Likely Science (65)

pypi: Mill

Alternative logging framework for Python
Papers that mentioned: 23

Very Likely Science (65)

cran: compare

Comparing Objects for Differences
Papers that mentioned: 23

Very Likely Science (83)

pypi: anaconda

Please use the Anaconda installer.
Papers that mentioned: 22

Very Likely Science (65)

pypi: SANE

Python modules for the SANE and pxc200 modules
Papers that mentioned: 22

Very Likely Science (65)

pypi: d3

A D3.js programming API for python
Papers that mentioned: 22

Very Likely Science (65)

pypi: OSP

Papers that mentioned: 22

Unlikely Science (0)

pypi: Pillow

Python Imaging Library (Fork)
Papers that mentioned: 22

Very Likely Science (100)

pypi: torchvision

image and video datasets and models for torch deep learning
Papers that mentioned: 22

Very Likely Science (100)

pypi: Rails

Rails - python web framework
Papers that mentioned: 22

Very Likely Science (65)

bioconductor: SISPA

SISPA: Method for Sample Integrated Set Profile Analysis
Papers that mentioned: 22

Very Likely Science (100)

pypi: SRGAN

Papers that mentioned: 22

Unlikely Science (0)

pypi: model

Object Relational Mapper (SQL database wrapper)
Papers that mentioned: 22

Very Likely Science (65)

bioconductor: RTCGAToolbox

A new tool for exporting TCGA Firehose data
Papers that mentioned: 22

Very Likely Science (100)

cran: rasterVis

Visualization Methods for Raster Data
Papers that mentioned: 22

Very Likely Science (85)

cran: OUwie

Analysis of Evolutionary Rates in an OU Framework
Papers that mentioned: 22

Very Likely Science (100)

pypi: jieba

Chinese Words Segmentation Utilities
Papers that mentioned: 22

Very Likely Science (65)

cran: stacks

Tidy Model Stacking
Papers that mentioned: 22

Very Likely Science (93)

pypi: 6

For future projects.
Papers that mentioned: 22

Very Likely Science (65)