Packages with Software Mentions in Scientific Papers

A full stack Flask based framework that put structure in the file system. Features: Caching, Mailing, Storage, CSRF, recaptcha and more
Papers that mentioned: 16

Very Likely Science (65)

pypi: STEME

STEME: an accurate efficient motif finder for large data sets.
Papers that mentioned: 16

Very Likely Science (80)

pypi: CROC

A package for calculating ROC curves and Concentrated ROC (CROC) curves.
Papers that mentioned: 16

Very Likely Science (80)

pypi: Clarify

A library for scraping and parsing election results from jurisdictions using Clarity elections systems.
Papers that mentioned: 16

Very Likely Science (65)

pypi: d

Documentation generation that won't make you tear your hair out.
Papers that mentioned: 16

Very Likely Science (65)

bioconductor: PWMEnrich

PWM enrichment analysis
Papers that mentioned: 16

Very Likely Science (85)

pypi: rosetta

Tools, wrappers, etc... for data science with a concentration on text processing
Papers that mentioned: 16

Very Likely Science (100)

cran: QTLRel

Tools for Mapping of Quantitative Traits of Genetically Related Individuals and Calculating Identity Coefficients from Pedigrees
Papers that mentioned: 16

Very Likely Science (85)

bioconductor: edge

Extraction of Differential Gene Expression
Papers that mentioned: 16

Very Likely Science (100)

cran: RRPP

Linear Model Evaluation with Randomized Residuals in a Permutation Procedure
Papers that mentioned: 16

Very Likely Science (75)

pypi: hdbscan

Clustering based on density with variable density clusters
Papers that mentioned: 16

Very Likely Science (100)

pypi: Satellite

A user interface to ThunderStorm library for ElectroStatic-Discharge (ESD) Transmission Line Pulse (TLP) measurement-data analysis
Papers that mentioned: 16

Very Likely Science (75)

cran: muma

Metabolomics Univariate and Multivariate Analysis
Papers that mentioned: 16

Very Likely Science (85)

cran: pdp

Partial Dependence Plots
Papers that mentioned: 16

Very Likely Science (95)

pypi: Shotgun

Shotgun package
Papers that mentioned: 16

Very Likely Science (65)

pypi: exe

Papers that mentioned: 16

Very Likely Science (65)

cran: dtw

Dynamic Time Warping Algorithms
Papers that mentioned: 16

Very Likely Science (85)

pypi: pcr

Python 3 Cryptography Toolkit
Papers that mentioned: 16

Very Likely Science (65)

pypi: dtw

Python DTW Module
Papers that mentioned: 16

Very Likely Science (100)

bioconductor: genArise

Microarray Analysis tool
Papers that mentioned: 16

Very Likely Science (100)

cran: biwavelet

Conduct Univariate and Bivariate Wavelet Analyses
Papers that mentioned: 16

Very Likely Science (100)

cran: convevol

Analysis of Convergent Evolution
Papers that mentioned: 16

Very Likely Science (93)

pypi: greedy

Greedy (topological) coloring for GeoPandas
Papers that mentioned: 16

Very Likely Science (85)

cran: limSolve

Solving Linear Inverse Models
Papers that mentioned: 16

Very Likely Science (75)

pypi: SCM

Gui for EPSC model and inverse analysis
Papers that mentioned: 16

Very Likely Science (75)

cran: irlba

Fast Truncated Singular Value Decomposition and Principal Components Analysis for Large Dense and Sparse Matrices
Papers that mentioned: 16

Very Likely Science (100)

cran: AUCRF

Variable Selection with Random Forest and the Area Under the Curve
Papers that mentioned: 16

Very Likely Science (75)

pypi: AFE

Accelerometer Feature Extractor
Papers that mentioned: 16

Very Likely Science (100)

pypi: D2R

A new statistic for efficient detection of repetitive sequences
Papers that mentioned: 16

Very Likely Science (80)

cran: mixdist

Finite Mixture Distribution Models
Papers that mentioned: 16

Very Likely Science (75)

cran: pcr

Analyzing Real-Time Quantitative PCR Data
Papers that mentioned: 16

Very Likely Science (83)

cran: PDM

Photogrammetric Distances Measurer
Papers that mentioned: 16

Very Likely Science (75)

cran: signal

Signal Processing
Papers that mentioned: 16

Very Likely Science (75)

pypi: ERP

Resource Planning System
Papers that mentioned: 16

Likely Science (40)

cran: skimr

Compact and Flexible Summaries of Data
Papers that mentioned: 16

Very Likely Science (100)

pypi: Mako

A super-fast templating language that borrows the best ideas from the existing templating languages.
Papers that mentioned: 16

Very Likely Science (65)

pypi: j5

j5 Robotics Framework
Papers that mentioned: 16

Very Likely Science (65)

pypi: CCC

Cloud Custom Connections
Papers that mentioned: 16

Very Likely Science (65)

bioconductor: IsoformSwitchAnalyzeR

Identify, Annotate and Visualize Isoform Switches with Functional Consequences from both short- and long-read RNA-seq data
Papers that mentioned: 16

Very Likely Science (90)

cran: rlang

Functions for Base Types and Core R and 'Tidyverse' Features
Papers that mentioned: 16

Very Likely Science (100)

cran: coxphf

Cox Regression with Firth's Penalized Likelihood
Papers that mentioned: 16

Very Likely Science (93)

cran: mlxR

Simulation of Longitudinal Data
Papers that mentioned: 16

Very Likely Science (93)

cran: ggRandomForests

Visually Exploring Random Forests
Papers that mentioned: 16

Very Likely Science (75)

bioconductor: MAIT

Statistical Analysis of Metabolomic Data
Papers that mentioned: 16

Very Likely Science (85)

cran: dabestr

Data Analysis using Bootstrap-Coupled Estimation
Papers that mentioned: 16

Very Likely Science (100)

cran: gdm

Generalized Dissimilarity Modeling
Papers that mentioned: 16

Very Likely Science (100)

bioconductor: SLqPCR

Functions for analysis of real-time quantitative PCR data at SIRS-Lab GmbH
Papers that mentioned: 16

Very Likely Science (90)

cran: ERP

Significance Analysis of Event-Related Potentials Data
Papers that mentioned: 16

Very Likely Science (60)

cran: CREAM

Clustering of Genomic Regions Analysis Method
Papers that mentioned: 16

Very Likely Science (97)

bioconductor: AneuFinder

Analysis of Copy Number Variation in Single-Cell-Sequencing Data
Papers that mentioned: 16

Very Likely Science (100)

cran: ggpmisc

Miscellaneous Extensions to 'ggplot2'
Papers that mentioned: 16

Very Likely Science (100)

cran: exact2x2

Exact Tests and Confidence Intervals for 2x2 Tables
Papers that mentioned: 16

Very Likely Science (83)

pypi: summit

Tools for optimizing chemical processes
Papers that mentioned: 16

Very Likely Science (100)

cran: candisc

Visualizing Generalized Canonical Discriminant and Canonical Correlation Analysis
Papers that mentioned: 16

Very Likely Science (99)

bioconductor: snapCGH

Segmentation, normalisation and processing of aCGH data
Papers that mentioned: 16

Very Likely Science (98)

cran: treedater

Fast Molecular Clock Dating of Phylogenetic Trees with Rate Variation
Papers that mentioned: 16

Very Likely Science (85)

bioconductor: scDD

Mixture modeling of single-cell RNA-seq data to identify genes with differential distributions
Papers that mentioned: 16

Very Likely Science (100)

cran: linprog

Linear Programming / Optimization
Papers that mentioned: 16

Very Likely Science (85)

cran: MKmisc

Miscellaneous Functions from M. Kohl
Papers that mentioned: 16

Very Likely Science (95)

cran: itertools

Iterator Tools
Papers that mentioned: 16

Very Likely Science (75)

cran: Exact

Unconditional Exact Test
Papers that mentioned: 16

Very Likely Science (75)

cran: parmigene

Parallel Mutual Information Estimation for Gene Network Reconstruction
Papers that mentioned: 16

Very Likely Science (100)

cran: DDM

Death Registration Coverage Estimation
Papers that mentioned: 16

Very Likely Science (75)

cran: adabag

Applies Multiclass AdaBoost.M1, SAMME and Bagging
Papers that mentioned: 16

Very Likely Science (75)

bioconductor: SPLINTER

Splice Interpreter of Transcripts
Papers that mentioned: 16

Very Likely Science (85)

cran: bayesplot

Plotting for Bayesian Models
Papers that mentioned: 16

Very Likely Science (93)

pypi: imgaug

Image augmentation library for deep neural networks
Papers that mentioned: 16

Very Likely Science (90)

cran: spatialEco

Spatial Analysis and Modelling Utilities
Papers that mentioned: 16

Very Likely Science (100)

cran: QuantPsyc

Quantitative Psychology Tools
Papers that mentioned: 16

Very Likely Science (75)

pypi: edge

Python bindings for Directed Edge's API
Papers that mentioned: 16

Very Likely Science (65)

pypi: tile

Syntax and config generator for tiling window managers
Papers that mentioned: 16

Very Likely Science (65)

pypi: tk

TensorKit is a deep learning helper between Python and C++.
Papers that mentioned: 16

Very Likely Science (90)

cran: spp

ChIP-Seq Processing Pipeline
Papers that mentioned: 16

Very Likely Science (75)

pypi: fib

a GUI for fibnacci sequence
Papers that mentioned: 16

Very Likely Science (65)

cran: SLOPE

Sorted L1 Penalized Estimation
Papers that mentioned: 16

Very Likely Science (90)

pypi: signal

Send SMS messages via ADB and your Android phone. Comes with a CLI.
Papers that mentioned: 16

Likely Science (40)

pypi: scythe

Find best matching set of transcripts for one-to-one orthologous genes from two or more species
Papers that mentioned: 15

Very Likely Science (80)

pypi: pantomime

MIME type normalisation and labels.
Papers that mentioned: 15

Very Likely Science (80)

cran: psycho

Efficient and Publishing-Oriented Workflow for Psychological Science
Papers that mentioned: 15

Very Likely Science (100)

cran: rEDM

Empirical Dynamic Modeling ('EDM')
Papers that mentioned: 15

Very Likely Science (85)

cran: R2BayesX

Estimate Structured Additive Regression Models with 'BayesX'
Papers that mentioned: 15

Very Likely Science (93)

pypi: lda

Topic modeling with latent Dirichlet allocation
Papers that mentioned: 15

Very Likely Science (90)

pypi: nstruct

Define complicate C/C++ structs in Python to parse/pack them from/to raw bytes
Papers that mentioned: 15

Very Likely Science (65)

pypi: PLEASE

Software for the analysis of Low Energy Electron Microscopy data
Papers that mentioned: 15

Very Likely Science (90)

cran: shinyBS

Twitter Bootstrap Components for Shiny
Papers that mentioned: 15

Very Likely Science (70)