Packages with Software Mentions in Scientific Papers

Pearl is a lightweight package manager for automating reproducible environments between different systems (Linux and OSX). It can be used for dotfiles, plugins, programs and any form of code accessible via git.
Papers that mentioned: 1

Very Likely Science (65)

pypi: perform

Easily call processes from python
Papers that mentioned: 1

Very Likely Science (65)

pypi: crt

Cloud Render Toolkit
Papers that mentioned: 1

Very Likely Science (65)

pypi: pfa

Very fast and consistent (if ugly) autoformatting for Python
Papers that mentioned: 1

Very Likely Science (85)

pypi: pflexible

A Python interface to FLEXPART data.
Papers that mentioned: 1

Very Likely Science (65)

pypi: skrebate

Relief-based feature selection algorithms
Papers that mentioned: 1

Very Likely Science (100)

pypi: vcstools

VCS/SCM source control library for svn, git, hg, and bzr
Papers that mentioned: 1

Very Likely Science (65)

pypi: phantom

a library for working with faces in python
Papers that mentioned: 1

Very Likely Science (65)

pypi: msea

Implementation of Microbe-Set Enrichment Analysis (MSEA).
Papers that mentioned: 1

Very Likely Science (75)

pypi: pharmd

PharMD: MD pharmacophores and virtual screening
Papers that mentioned: 1

Very Likely Science (100)

pypi: phonoLAMMPS

phonoLAMMPS module
Papers that mentioned: 1

Very Likely Science (75)

pypi: phonon

Provides easy, fault tolerant, distributed references with redis as a backend.
Papers that mentioned: 1

Very Likely Science (80)

pypi: CrowdTruth

Disagreement based metrics for the processing and evaluation of crowdsourced annotations
Papers that mentioned: 1

Very Likely Science (80)

pypi: gpml2svg

Render GPML pathway markup to SVG from the commandline/Python.
Papers that mentioned: 1

Very Likely Science (90)

pypi: Physcraper

Physcraper
Papers that mentioned: 1

Very Likely Science (100)

pypi: PhySpeTree

One command line auto reconstruct phylogenetic tree.
Papers that mentioned: 1

Very Likely Science (85)

pypi: PlotKit

PlotKit packaged as TurboGears widgets.
Papers that mentioned: 1

Very Likely Science (65)

pypi: slope

An easy-to-use coreference resolution library.
Papers that mentioned: 1

Very Likely Science (85)

pypi: picky

A tool for checking versions of packages used by conda or pip are as specified in their requirements files.
Papers that mentioned: 1

Very Likely Science (80)

pypi: slurm

A bunch tools I have created over the years
Papers that mentioned: 1

Very Likely Science (65)

pypi: ve

ve application
Papers that mentioned: 1

Very Likely Science (65)

pypi: Pinhole

Less Is More.
Papers that mentioned: 1

Very Likely Science (65)

pypi: place

Place python library
Papers that mentioned: 1

Very Likely Science (65)

pypi: placer

Let's draw on /r/place!
Papers that mentioned: 1

Very Likely Science (65)

cran: gppm

Gaussian Process Panel Modeling
Papers that mentioned: 1

Very Likely Science (85)

pypi: smbus2

smbus2 is a drop-in replacement for smbus-cffi/smbus-python in pure Python
Papers that mentioned: 1

Very Likely Science (65)

cran: divDyn

Diversity Dynamics using Fossil Sampling Data
Papers that mentioned: 1

Very Likely Science (100)

pypi: plusplus

Enable the ++x and --x expressions in Python
Papers that mentioned: 1

Very Likely Science (95)

pypi: smote-variants

Variants of the synthetic minority oversampling technique (SMOTE) for imbalanced learning
Papers that mentioned: 1

Very Likely Science (92)

pypi: pole

A micro framework for PyGtk, PDF, XML, Utilities and Brazilan NFe.
Papers that mentioned: 1

Very Likely Science (65)

pypi: polecat

Papers that mentioned: 1

Very Likely Science (65)

pypi: poll

Utilities for polling, retrying, and exception handling
Papers that mentioned: 1

Very Likely Science (65)

pypi: polo

Optimal Linear Ordering of Hierarchical Trees
Papers that mentioned: 1

Very Likely Science (65)

pypi: SCNIC

A tool for finding and summarizing modules of highly correlated observations in compositional data
Papers that mentioned: 1

Very Likely Science (100)

pypi: poppler-utils

Precompiled command-line utilities (based on Poppler) for manipulating PDF files and converting them to other formats.
Papers that mentioned: 1

Very Likely Science (65)

pypi: vectools

Vectools - A bioinformatics-focused command-line utility for linear algebra, table manipulation, machine leaning, networks/graphs, and more.
Papers that mentioned: 1

Likely Science (50)

pypi: snapshot

Extract named tuples from classes with a simple descriptor
Papers that mentioned: 1

Likely Science (40)

cran: dineq

Decomposition of (Income) Inequality
Papers that mentioned: 1

Very Likely Science (75)

pypi: veh

virtualenv for hg
Papers that mentioned: 1

Very Likely Science (65)

pypi: primed

The Primed Toolkit
Papers that mentioned: 1

Very Likely Science (100)

pypi: pplot

This module can be used to create high-quality, presentation-ready X-Y graphs quickly and easily.
Papers that mentioned: 1

Very Likely Science (65)

cran: PriorGen

Generates Prior Distributions for Proportions
Papers that mentioned: 1

Very Likely Science (75)

pypi: PyAuth

Google Authenticator (TOTP) desktop client
Papers that mentioned: 1

Very Likely Science (65)

cran: meifly

Interactive Model Exploration using 'GGobi'
Papers that mentioned: 1

Very Likely Science (75)

cran: deeptime

Plotting Tools for Anyone Working in Deep Time
Papers that mentioned: 1

Very Likely Science (100)

pypi: creativity

Quick inspiration
Papers that mentioned: 1

Very Likely Science (85)

pypi: crank

Generalization of dispatch mechanism for use across frameworks.
Papers that mentioned: 1

Very Likely Science (65)

pypi: protaccel

Package to infer kinetics from scRNA-seq/feature barcoding data.
Papers that mentioned: 1

Very Likely Science (100)

pypi: proxima

Pythonic Makefile
Papers that mentioned: 1

Very Likely Science (65)

pypi: ps_mem

A utility to report core memory usage per program
Papers that mentioned: 1

Likely Science (40)

pypi: PSNN

Python Simple Neural Network - PSNN is python3 lib for machine learning
Papers that mentioned: 1

Very Likely Science (75)

pypi: gpipe

GridPipe
Papers that mentioned: 1

Very Likely Science (80)

pypi: ptools

Cross Platform Process Infomation (cmdline, environ) and Management
Papers that mentioned: 1

Very Likely Science (65)

pypi: ptrace

C extension providing access to ptrace(2)
Papers that mentioned: 1

Very Likely Science (80)

pypi: ptrans

A command line tool help you trans other lauguages to Chinese each other
Papers that mentioned: 1

Very Likely Science (65)

pypi: PWH

Web framework for code to be moved between ASP/PSP with an integrated database ORM
Papers that mentioned: 1

Very Likely Science (65)

cran: graticule

Meridional and Parallel Lines for Maps
Papers that mentioned: 1

Very Likely Science (77)

pypi: venom

Venom is an upcoming RPC framework for Python
Papers that mentioned: 1

Very Likely Science (100)

cran: DatabaseConnectorJars

JAR Dependencies for the 'DatabaseConnector' Package
Papers that mentioned: 1

Very Likely Science (92)

cran: daewr

Design and Analysis of Experiments with R
Papers that mentioned: 1

Very Likely Science (85)

pypi: GPGO

Bayesian Optimization with Gaussian Process as surrogate model
Papers that mentioned: 1

Very Likely Science (75)

pypi: pybloom

PyBloom: A Probabilistic data structure
Papers that mentioned: 1

Very Likely Science (65)

cran: coxphMIC

Sparse Estimation of Cox Proportional Hazards Models via Approximated Information Criterion
Papers that mentioned: 1

Very Likely Science (75)

cran: covid19br

Brazilian COVID-19 Pandemic Data
Papers that mentioned: 1

Very Likely Science (75)

pypi: gpf

Geocom Python Framework for ArcPy (Esri ArcGIS).
Papers that mentioned: 1

Very Likely Science (80)

cran: conos

Clustering on Network of Samples
Papers that mentioned: 1

Very Likely Science (100)

pypi: pydmps

Python implementation of Dynamic Movement Primitives (DMPs)
Papers that mentioned: 1

Very Likely Science (95)

pypi: spackle

Help identify gaps in python code coverage.
Papers that mentioned: 1

Very Likely Science (65)

pypi: pyExcelerator

generating Excel 97+ files; importing Excel 95+ files; Excel files dumper; OLE2 files dumper; xls2txt, xls2csv, xls2html
Papers that mentioned: 1

Very Likely Science (65)

cran: CompRandFld

Composite-Likelihood Based Analysis of Random Fields
Papers that mentioned: 1

Very Likely Science (85)

pypi: pyfastaq

Script to manipulate FASTA and FASTQ files, plus API for developers
Papers that mentioned: 1

Very Likely Science (100)

cran: coder

Deterministic Categorization of Items Based on External Code Data
Papers that mentioned: 1

Very Likely Science (75)

pypi: pygmes

Run GeneMark-ES using pretrained models
Papers that mentioned: 1

Very Likely Science (85)

pypi: venture

Rofi / Wofi based project selector
Papers that mentioned: 1

Very Likely Science (65)

cran: CodataGS

Genomic Prediction Using SNP Codata
Papers that mentioned: 1

Very Likely Science (75)

pypi: viral

Acquiring and analyzing covid-19 (coronavirus) statistics data
Papers that mentioned: 1

Very Likely Science (75)

pypi: pyLoadBalancer

A load-balancer package for Python
Papers that mentioned: 1

Very Likely Science (80)