Packages with Software Mentions in Scientific Papers

A set of helper functions to make working with spatial data in open source tools easier. This package is maintained by Earth Lab and was originally designed to support the earth analytics education program.
Papers that mentioned: 1

Very Likely Science (100)

pypi: speak

fly.
Papers that mentioned: 1

Very Likely Science (65)

pypi: spci

SPCI: structural and physicochemical interpretation of QSAR models
Papers that mentioned: 1

Very Likely Science (65)

pypi: Spear

The reference implementation of the SPEAR ranking algorithm in Python
Papers that mentioned: 1

Very Likely Science (90)

pypi: zxing

Wrapper for decoding/reading barcodes with ZXing (Zebra Crossing) library
Papers that mentioned: 1

Very Likely Science (80)

cran: phyloregion

Biogeographic Regionalization and Macroecology
Papers that mentioned: 1

Very Likely Science (100)

pypi: crop

Papers that mentioned: 1

Unlikely Science (0)

pypi: spikecomparison

Python toolkit for analysis, visualization, and comparison of spike sorting output
Papers that mentioned: 1

Very Likely Science (75)

cran: breakDown

Model Agnostic Explainers for Individual Predictions
Papers that mentioned: 1

Very Likely Science (85)

cran: phylosamp

Sample Size Calculations for Molecular and Phylogenetic Studies
Papers that mentioned: 1

Very Likely Science (100)

pypi: csh

A collection of utilities for interacting with CSH services.
Papers that mentioned: 1

Very Likely Science (65)

bioconductor: maPredictDSC

Phenotype prediction using microarray data: approach of the best overall team in the IMPROVER Diagnostic Signature Challenge
Papers that mentioned: 1

Very Likely Science (100)

pypi: SPLICE-q

SPLICE-q is a fast and user-friendly Python tool for genome-wide SPLICing Efficiency quantification
Papers that mentioned: 1

Very Likely Science (65)

pypi: staccato

Twitter API wrapper for python 3
Papers that mentioned: 1

Likely Science (40)

cran: psSubpathway

Flexible Identification of Phenotype-Specific Subpathways
Papers that mentioned: 1

Very Likely Science (85)

pypi: FingerReader

Python library for fingerprint sensors.
Papers that mentioned: 1

Likely Science (40)

pypi: mld

Package to support MLD
Papers that mentioned: 1

Very Likely Science (65)

pypi: spplot

command-line serial plotter
Papers that mentioned: 1

Very Likely Science (80)

pypi: sra-py

Python wrapper for some-random-api.ml
Papers that mentioned: 1

Very Likely Science (65)

cran: bPeaks

an intuitive peak-calling strategy to detect transcription factor binding sites from ChIP-seq data in small eukaryotic genomes
Papers that mentioned: 1

Likely Science (45)

pypi: glim

A modern framework for the web
Papers that mentioned: 1

Very Likely Science (65)

pypi: srs

Startied random sample from the dataframe
Papers that mentioned: 1

Very Likely Science (65)

pypi: xxxx

Papers that mentioned: 1

Unlikely Science (0)

pypi: ssr

Shared-Secret Requests: A simple HTTP authentication library using shared secrets.
Papers that mentioned: 1

Very Likely Science (65)

pypi: flavio

A Python package for flavour physics phenomenology in the Standard Model and beyond
Papers that mentioned: 1

Very Likely Science (75)

pypi: sss

Simple Scrum System is a basic Django-based Scrum-like project manager. It takes advantage of the automagic admin contrib site.
Papers that mentioned: 1

Very Likely Science (65)

cran: sumFREGAT

Fast Region-Based Association Tests on Summary Statistics
Papers that mentioned: 1

Very Likely Science (85)

pypi: TrackingNet

TrackingNet SDK
Papers that mentioned: 1

Likely Science (40)

pypi: floor

a python module to floor strings or variables
Papers that mentioned: 1

Very Likely Science (65)

cran: BOIN

Bayesian Optimal INterval (BOIN) Design for Single-Agent and Drug- Combination Phase I Clinical Trials
Papers that mentioned: 1

Very Likely Science (85)

cran: subscore

Computing Subscores in Classical Test Theory and Item Response Theory
Papers that mentioned: 1

Very Likely Science (83)

cran: SubVis

Visual Exploration of Protein Alignments Resulting from Multiple Substitution Matrices
Papers that mentioned: 1

Very Likely Science (83)

cran: supcluster

Supervised Cluster Analysis
Papers that mentioned: 1

Very Likely Science (93)

pypi: lulz

UNKNOWN
Papers that mentioned: 1

Very Likely Science (65)

pypi: folder

Papers that mentioned: 1

Very Likely Science (65)

pypi: lre

Papers that mentioned: 1

Unlikely Science (0)

bioconductor: slalom

Factorial Latent Variable Modeling of Single-Cell RNA-Seq Data
Papers that mentioned: 1

Very Likely Science (100)

pypi: luigi

Workflow mgmgt + task scheduling + dependency resolution.
Papers that mentioned: 1

Very Likely Science (100)

pypi: food

yum
Papers that mentioned: 1

Very Likely Science (65)

pypi: micom

Microbial community modeling based on cobrapy.
Papers that mentioned: 1

Very Likely Science (100)

cran: blaster

Native R Implementation of an Efficient BLAST-Like Algorithm
Papers that mentioned: 1

Very Likely Science (100)

cran: restriktor

Restricted Statistical Estimation and Inference for Linear Models
Papers that mentioned: 1

Very Likely Science (85)

cran: IntegratedMRF

Integrated Prediction using Uni-Variate and Multivariate Random Forests
Papers that mentioned: 1

Very Likely Science (85)

cran: RFGLS

Rapid Feasible Generalized Least Squares
Papers that mentioned: 1

Very Likely Science (75)

pypi: lodash

python implementation for lodash
Papers that mentioned: 1

Very Likely Science (65)

pypi: lollipop

Data serialization and validation library
Papers that mentioned: 1

Very Likely Science (65)

pypi: ciri

Python Schema Library
Papers that mentioned: 1

Very Likely Science (65)

bioconductor: SigCheck

Check a gene signature's prognostic performance against random signatures, known signatures, and permuted data/metadata
Papers that mentioned: 1

Very Likely Science (90)

cran: trustOptim

Trust Region Optimization for Nonlinear Functions with Sparse Hessians
Papers that mentioned: 1

Very Likely Science (100)

pypi: mafs

Quickly conjure up virtual fileysystems
Papers that mentioned: 1

Very Likely Science (65)

pypi: submission

Takes algorithm, train, test, X variables, Y variables, column names required for submission and name of submission file as input and produces an output csv for submitting in the competition.
Papers that mentioned: 1

Very Likely Science (75)

cran: phytotools

Phytoplankton Production Tools
Papers that mentioned: 1

Very Likely Science (75)

pypi: lizard

A code analyzer without caring the C/C++ header files. It works with Java, C/C++, JavaScript, Python, Ruby, Swift, Objective C. Metrics includes cyclomatic complexity number etc.
Papers that mentioned: 1

Very Likely Science (85)

pypi: Maki

minimalist functional library
Papers that mentioned: 1

Very Likely Science (65)

cran: RGenetics

R packages for genetics research
Papers that mentioned: 1

Very Likely Science (85)

pypi: cite

Command line tool to turn DOIs into citations
Papers that mentioned: 1

Very Likely Science (100)

bioconductor: seqCNA

Copy number analysis of high-throughput sequencing cancer data
Papers that mentioned: 1

Very Likely Science (75)

bioconductor: seq2pathway

a novel tool for functional gene-set (or termed as pathway) analysis of next-generation sequencing data
Papers that mentioned: 1

Very Likely Science (93)

pypi: ledapy

Ledapy is a minimal port of Ledalab (www.ledalab.de) for Python
Papers that mentioned: 1

Very Likely Science (100)

cran: swirlify

A Toolbox for Writing 'swirl' Courses
Papers that mentioned: 1

Very Likely Science (75)

cran: bit64

A S3 Class for Vectors of 64bit Integers
Papers that mentioned: 1

Very Likely Science (75)

pypi: EXONEST

Papers that mentioned: 1

Very Likely Science (65)

pypi: minke

Minke is a Python package to produce Mock Data Challenge data sets for LIGO interferometers.
Papers that mentioned: 1

Very Likely Science (100)

pypi: libsm3

Papers that mentioned: 1

Very Likely Science (65)

pypi: libp2p

libp2p implementation written in python
Papers that mentioned: 1

Very Likely Science (100)

cran: swCRTdesign

Stepped Wedge Cluster Randomized Trial (SW CRT) Design
Papers that mentioned: 1

Very Likely Science (83)

pypi: babar

Elephants never forget.
Papers that mentioned: 1

Very Likely Science (65)

cran: taxlist

Handling Taxonomic Lists
Papers that mentioned: 1

Very Likely Science (75)

pypi: min

A simple printer of nested list
Papers that mentioned: 1

Very Likely Science (65)

pypi: orbkit

A Toolbox for Post-Processing Quantum Chemical Wavefunction Data
Papers that mentioned: 1

Very Likely Science (80)

cran: rIP

Detects Fraud in Online Surveys by Tracing, Scoring, and Visualizing IP Addresses
Papers that mentioned: 1

Very Likely Science (83)

bioconductor: Sconify

A toolkit for performing KNN-based statistics for flow and mass cytometry data
Papers that mentioned: 1

Very Likely Science (100)

cran: Biolinv

Modelling and Forecasting Biological Invasions
Papers that mentioned: 1

Very Likely Science (85)

pypi: legato

Papers that mentioned: 1

Unlikely Science (0)

cran: BayesGWQS

Bayesian Grouped Weighted Quantile Sum Regression
Papers that mentioned: 1

Very Likely Science (93)

cran: Biocomb

Feature Selection and Classification with the Embedded Validation Procedures for Biomedical Data Analysis
Papers that mentioned: 1

Very Likely Science (85)

pypi: reda

Reproducible Electrical Data Analysis
Papers that mentioned: 1

Very Likely Science (100)

cran: BayesianNetwork

Bayesian Network Modeling and Analysis
Papers that mentioned: 1

Very Likely Science (100)

pypi: C-Rank

Extracts Keyphrases from Documents
Papers that mentioned: 1

Likely Science (40)

pypi: laszip

Bindings for LASzip made with pybind11
Papers that mentioned: 1

Very Likely Science (65)

pypi: lgr

Papers that mentioned: 1

Very Likely Science (65)

cran: rsf

Report of Statistical Findings in 'bookdown'
Papers that mentioned: 1

Very Likely Science (85)

pypi: milc

Opinionated Batteries-Included Python 3 CLI Framework.
Papers that mentioned: 1

Very Likely Science (80)

cran: bigleaf

Physical and Physiological Ecosystem Properties from Eddy Covariance Data
Papers that mentioned: 1

Very Likely Science (100)

cran: bgmm

Gaussian Mixture Modeling Algorithms and the Belief-Based Mixture Modeling
Papers that mentioned: 1

Very Likely Science (85)

pypi: fread

A python package to change from Interaction console based code to file based code
Papers that mentioned: 1

Very Likely Science (65)

pypi: markers

A data labeling widget for use with Markers.ai
Papers that mentioned: 1

Very Likely Science (80)

pypi: transmap

API for Transmap Hub
Papers that mentioned: 1

Very Likely Science (65)

pypi: frog

Improved and extended turtle graphics like module
Papers that mentioned: 1

Very Likely Science (90)