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: poretools
A toolset for working with nanopore sequencing data
Papers that mentioned: 62
cran: Storm
Write Storm Bolts in R using the Storm Multi-Language Protocol
Papers that mentioned: 62
cran: PopGenome
An Efficient Swiss Army Knife for Population Genomic Analyses
Papers that mentioned: 62
cran: vcfR
Manipulate and Visualize VCF Data
Papers that mentioned: 62
cran: ecospat
Spatial Ecology Miscellaneous Methods
Papers that mentioned: 62
bioconductor: IRanges
Foundation of integer range manipulation in Bioconductor
Papers that mentioned: 62
cran: CORE
Cores of Recurrent Events
Papers that mentioned: 62
pypi: android
Python for iran.
Papers that mentioned: 62
pypi: kmeans
python wrapper for basic c implementation of kmeans
Papers that mentioned: 62
pypi: gensim
Python framework for fast Vector Space Modelling
Papers that mentioned: 61
pypi: distruct
a package to generate 3d molecular structures from distance constraints
Papers that mentioned: 61
pypi: CDS
Access articles, reports and multimedia content in HEP
Papers that mentioned: 61
bioconductor: EDASeq
Exploratory Data Analysis and Normalization for RNA-Seq
Papers that mentioned: 61
pypi: ti
A silly simple time tracker
Papers that mentioned: 61
pypi: Lumpy

Papers that mentioned: 60
cran: enrichR
Provides an R Interface to 'Enrichr'
Papers that mentioned: 60
pypi: make
Create project layout from jinja2 templates.
Papers that mentioned: 60
cran: HRM
High-Dimensional Repeated Measures
Papers that mentioned: 60
bioconductor: monocle
Clustering, differential expression, and trajectory analysis for single- cell RNA-Seq
Papers that mentioned: 60
pypi: MICA
Mutual Information-based Clustering Analysis tool designed for scRNA-seq data
Papers that mentioned: 60
cran: gtools
Various R Programming Tools
Papers that mentioned: 60
pypi: pca
pca: A Python Package for Principal Component Analysis.
Papers that mentioned: 60
cran: EpiEstim
Estimate Time Varying Reproduction Numbers from Epidemic Curves
Papers that mentioned: 60
cran: glmmML
Generalized Linear Models with Clustering
Papers that mentioned: 60
cran: exactRankTests
Exact Distributions for Rank and Permutation Tests
Papers that mentioned: 60
cran: latticeExtra
Extra Graphical Utilities Based on Lattice
Papers that mentioned: 60
pypi: monocle
An async programming framework with a blocking look-alike syntax
Papers that mentioned: 60
cran: BAT
Biodiversity Assessment Tools
Papers that mentioned: 60
cran: XML
Tools for Parsing and Generating XML Within R and S-Plus
Papers that mentioned: 60
cran: AntWeb
programmatic interface to the AntWeb
Papers that mentioned: 59
cran: MTA
Multiscalar Territorial Analysis
Papers that mentioned: 59
pypi: Resource
A Python library concentrated on the Resource layer of RESTful APIs.
Papers that mentioned: 59
pypi: sleuth

Papers that mentioned: 59
cran: MBESS
The MBESS R Package
Papers that mentioned: 59
pypi: Evolve
Web interface for the Volatility Memory Forensics Framework
Papers that mentioned: 59
pypi: Detector
vunerable rsa keys detector
Papers that mentioned: 59
cran: plotROC
Generate Useful ROC Curve Charts for Print and Interactive Use
Papers that mentioned: 59
pypi: mysql
Virtual package for MySQL-python
Papers that mentioned: 59
pypi: seq
Generic sequence manipulation functions
Papers that mentioned: 58
cran: AMPLE
Shiny Apps to Support Capacity Building on Harvest Control Rules
Papers that mentioned: 58
bioconductor: SMAP
A Segmental Maximum A Posteriori Approach to Array-CGH Copy Number Profiling
Papers that mentioned: 58
pypi: Felix
A simple printer of nester lists
Papers that mentioned: 58
pypi: cctbx
The Computational Crystallography Toolbox
Papers that mentioned: 58
cran: OneR
One Rule Machine Learning Classification Algorithm with Enhancements
Papers that mentioned: 58
pypi: bzip2
Papers that mentioned: 58
cran: StAMPP
Statistical Analysis of Mixed Ploidy Populations
Papers that mentioned: 58
cran: MixSIAR
Bayesian Mixing Models in R
Papers that mentioned: 58
cran: ABACUS
Apps Based Activities for Communicating and Understanding Statistics
Papers that mentioned: 58
cran: ggraph
An Implementation of Grammar of Graphics for Graphs and Networks
Papers that mentioned: 58
cran: ggalluvial
Alluvial Plots in 'ggplot2'
Papers that mentioned: 57
pypi: TPP
Text PreProcessing libraries
Papers that mentioned: 57
cran: MESS
Miscellaneous Esoteric Statistical Scripts
Papers that mentioned: 57
cran: semPlot
Path Diagrams and Visual Analysis of Various SEM Packages' Output
Papers that mentioned: 57
pypi: grep
String lookup has never been prettier.
Papers that mentioned: 57
cran: RobustRankAggreg
Methods for Robust Rank Aggregation
Papers that mentioned: 57
bioconductor: TPP
Analyze thermal proteome profiling (TPP) experiments
Papers that mentioned: 57
pypi: github
An asynchronous python wrapper around the GitHub API
Papers that mentioned: 57
cran: SIGN
Similarity Identification in Gene Expression
Papers that mentioned: 57
cran: rehh
Searching for Footprints of Selection using 'Extended Haplotype Homozygosity' Based Tests
Papers that mentioned: 57
cran: SCAT
Summary Based Conditional Association Test
Papers that mentioned: 57
cran: gProfileR
Interface to the 'g:Profiler' Toolkit
Papers that mentioned: 56
bioconductor: LOLA
Locus overlap analysis for enrichment of genomic ranges
Papers that mentioned: 56
cran: fastICA
FastICA Algorithms to Perform ICA and Projection Pursuit
Papers that mentioned: 56
cran: corrgram
Plot a Correlogram
Papers that mentioned: 56
pypi: barrnap
python package for barrnap
Papers that mentioned: 56
cran: pec
Prediction Error Curves for Risk Prediction Models in Survival Analysis
Papers that mentioned: 56
cran: zCompositions
Treatment of Zeros, Left-Censored and Missing Values in Compositional Data Sets
Papers that mentioned: 56
cran: ACA
Abrupt Change-Point or Aberration Detection in Point Series
Papers that mentioned: 56
pypi: map
map applies a command to files/folders at a certain path.
Papers that mentioned: 56
pypi: PTP
PTP parses and ranks the discoveries listed in security tool reports.
Papers that mentioned: 56
cran: SID
Structural Intervention Distance
Papers that mentioned: 56
cran: RAMP
Regularized Generalized Linear Models with Interaction Effects
Papers that mentioned: 56
bioconductor: SCOPE
A normalization and copy number estimation method for single-cell DNA sequencing
Papers that mentioned: 56
cran: Metrics
Evaluation Metrics for Machine Learning
Papers that mentioned: 56
cran: SuperLearner
Super Learner Prediction
Papers that mentioned: 56
cran: BAMMtools
Analysis and Visualization of Macroevolutionary Dynamics on Phylogenetic Trees
Papers that mentioned: 55
cran: cocor
Comparing Correlations
Papers that mentioned: 55
pypi: 4
It's just a name snipe.
Papers that mentioned: 55
cran: TDA
Statistical Tools for Topological Data Analysis
Papers that mentioned: 55
pypi: ICP
A Python module for registering a photo with a database image of the same scene
Papers that mentioned: 55
pypi: Tinker

Papers that mentioned: 55
cran: GD
Geographical Detectors for Assessing Spatial Factors
Papers that mentioned: 55
pypi: lmfit
Least-Squares Minimization with Bounds and Constraints
Papers that mentioned: 55
cran: LSD
Lots of Superior Depictions
Papers that mentioned: 55
pypi: Watershed
An image segmentation algorithm based on the watershed paradigm
Papers that mentioned: 55
cran: HH
Statistical Analysis and Data Display: Heiberger and Holland
Papers that mentioned: 55
cran: BAS
Bayesian Variable Selection and Model Averaging using Bayesian Adaptive Sampling
Papers that mentioned: 55
cran: CGE
Computing General Equilibrium
Papers that mentioned: 55
cran: statmod
Statistical Modeling
Papers that mentioned: 55
bioconductor: RcisTarget
RcisTarget Identify transcription factor binding motifs enriched on a list of genes or genomic regions
Papers that mentioned: 55
pypi: hmm
Functions for inference on HMMs
Papers that mentioned: 55
cran: SAVE
Papers that mentioned: 55
pypi: the
rspec/should.js assertion style for python test
Papers that mentioned: 55
cran: PMA
Penalized Multivariate Analysis
Papers that mentioned: 55
pypi: CouchDB
Python library for working with CouchDB
Papers that mentioned: 55
cran: Cubist
Rule- And Instance-Based Regression Modeling
Papers that mentioned: 54
bioconductor: missMethyl
Analysing Illumina HumanMethylation BeadChip Data
Papers that mentioned: 54
bioconductor: GenVisR
Genomic Visualizations in R
Papers that mentioned: 54
bioconductor: BEAT
BEAT - BS-Seq Epimutation Analysis Toolkit
Papers that mentioned: 54
bioconductor: Spectra
Spectra Infrastructure for Mass Spectrometry Data
Papers that mentioned: 54