# Ecosyste.ms: Papers

An open API service providing mapping between scientific papers and software projects that are mentioned in them.

All mentions data is based on the CZI Software Mentions dataset.

##### pypi: engine

Pure python extensible SQL database engine supporting NULL values. Formally SnakeSQL.Papers that mentioned: 732

##### cran: HyPhy

Macroevolutionary phylogentic analysis of species trees and gene treesPapers that mentioned: 722

##### bioconductor: DEGseq

Identify Differentially Expressed Genes from RNA-seq dataPapers that mentioned: 697

##### pypi: PsychoPy

PsychoPy provides easy, precise, flexible experiments in behavioural sciencesPapers that mentioned: 691

##### cran: factoextra

Extract and Visualize the Results of Multivariate Data AnalysesPapers that mentioned: 650

##### pypi: pandas

Powerful data structures for data analysis, time series, and statisticsPapers that mentioned: 640

##### pypi: Analyze

Analyze is a python library that provides comprehensive statistical analysis of a dataframe in 5 lines of code. It creates significant insight for data scientists, analysts and machine learning engineers, enabling quick understanding of a dataset.Papers that mentioned: 615

##### bioconductor: COMPASS

Combinatorial Polyfunctionality Analysis of Single CellsPapers that mentioned: 614

##### cran: phytools

Phylogenetic Tools for Comparative Biology (and Other Things)Papers that mentioned: 586

##### pypi: environment

This library provides parsing and validation of environment variables.Papers that mentioned: 569

##### pypi: Manager

Manager is the Components Manager package of Umbra, sIBL_GUI and sIBL_Reporter.Papers that mentioned: 524

##### bioconductor: RTCA

Open-source toolkit to analyse data from xCELLigence System (RTCA)Papers that mentioned: 516

##### cran: STAT

Interactive Document for Working with Basic Statistical AnalysisPapers that mentioned: 508

##### pypi: 2

Papers that mentioned: 499##### cran: survivalROC

Time-Dependent ROC Curve Estimation from Censored Survival DataPapers that mentioned: 479

##### bioconductor: ACE

Absolute Copy Number Estimation from Low-coverage Whole Genome SequencingPapers that mentioned: 478

##### bioconductor: ggtree

an R package for visualization of tree and annotation dataPapers that mentioned: 474

##### cran: Spectrum

Fast Adaptive Spectral Clustering for Single and Multi-View DataPapers that mentioned: 450

##### cran: pvclust

Hierarchical Clustering with P-Values via Multiscale Bootstrap ResamplingPapers that mentioned: 442

##### bioconductor: CAMERA

Collection of annotation related methods for mass spectrometry dataPapers that mentioned: 429

##### cran: e1071

Misc Functions of the Department of Statistics, Probability Theory Group (Formerly: E1071), TU WienPapers that mentioned: 419

##### pypi: and

A package to prevent Dependency Confusion attacks against Yandex.Papers that mentioned: 418

##### cran: cluster

"Finding Groups in Data": Cluster Analysis Extended Rousseeuw et al.Papers that mentioned: 416

##### bioconductor: DECIPHER

Tools for curating, analyzing, and manipulating biological sequencesPapers that mentioned: 415

##### pypi: py

library with cross-python path, ini-parsing, io, code, log facilitiesPapers that mentioned: 403

##### pypi: system

Papers that mentioned: 393##### pypi: GeoDa

Papers that mentioned: 389##### pypi: Explorer

A module to control the Explorer HAT Raspberry Pi Addon BoardPapers that mentioned: 379

##### cran: glmmTMB

Generalized Linear Mixed Models using Template Model BuilderPapers that mentioned: 373