Packages with Software Mentions in Scientific Papers

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: ebus

ebus - Event bus
Papers that mentioned: 1

Very Likely Science (65)

bioconductor: sscore

S-Score Algorithm for Affymetrix Oligonucleotide Microarrays
Papers that mentioned: 1

Very Likely Science (100)

cran: oz

Plot the Australian Coastline and States
Papers that mentioned: 1

Very Likely Science (75)

bioconductor: srnadiff

Finding differentially expressed unannotated genomic regions from RNA-seq data
Papers that mentioned: 1

Very Likely Science (100)

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: IPDfromKM

Map Digitized Survival Curves Back to Individual Patient Data
Papers that mentioned: 1

Very Likely Science (75)

pypi: wtest

这是我写的第一个python模块
Papers that mentioned: 1

Very Likely Science (65)

pypi: bacolonyzer

Analyse timeseries of QFA images
Papers that mentioned: 1

Very Likely Science (80)

cran: bnma

Bayesian Network Meta-Analysis using 'JAGS'
Papers that mentioned: 1

Very Likely Science (85)

cran: fastDummies

Fast Creation of Dummy (Binary) Columns and Rows from Categorical Variables
Papers that mentioned: 1

Very Likely Science (99)

bioconductor: slalom

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

Very Likely Science (100)

pypi: FLiP

F L i P : Logical Framework in Python
Papers that mentioned: 1

Very Likely Science (80)

cran: blaster

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

Very Likely Science (100)

pypi: backmap

Shows protein backbone structures in compact graphical form using Ramachandran numbers
Papers that mentioned: 1

Very Likely Science (80)

bioconductor: SimFFPE

NGS Read Simulator for FFPE Tissue
Papers that mentioned: 1

Very Likely Science (90)

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)

pypi: bpel

Papers that mentioned: 1

Very Likely Science (65)

pypi: bpg

template engine with expression
Papers that mentioned: 1

Very Likely Science (75)

pypi: backbone

Tools for development with Backbone
Papers that mentioned: 1

Very Likely Science (65)

bioconductor: SigFuge

SigFuge
Papers that mentioned: 1

Very Likely Science (90)

pypi: bp-utils

A set of scripts for Bitbucket Pipelines
Papers that mentioned: 1

Very Likely Science (65)

pypi: br

batch rename
Papers that mentioned: 1

Very Likely Science (65)

pypi: Braid

Meta-framework for faster prototyping in Deep Learning
Papers that mentioned: 1

Very Likely Science (90)

pypi: brainglobe

Python-based tools for computational neuroanatomy.
Papers that mentioned: 1

Very Likely Science (75)

pypi: osd

A fully featured notification daemon
Papers that mentioned: 1

Very Likely Science (65)

pypi: bpmn

Papers that mentioned: 1

Very Likely Science (65)

pypi: brama

API Gateway proxy server with plugins
Papers that mentioned: 1

Very Likely Science (65)

pypi: brancher

A user-centered Python package for differentiable probabilistic inference
Papers that mentioned: 1

Very Likely Science (65)

cran: panelvar

Panel Vector Autoregression
Papers that mentioned: 1

Very Likely Science (85)

cran: intRvals

Analysis of Time-Ordered Event Data with Missed Observations
Papers that mentioned: 1

Very Likely Science (93)

cran: BivRegBLS

Tolerance Interval and EIV Regression - Method Comparison Studies
Papers that mentioned: 1

Very Likely Science (85)

cran: trustOptim

Trust Region Optimization for Nonlinear Functions with Sparse Hessians
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)

pypi: Flintrock

A command-line tool for launching Apache Spark clusters.
Papers that mentioned: 1

Very Likely Science (80)

cran: Rearrangement

Monotonize Point and Interval Functional Estimates by Rearrangement
Papers that mentioned: 1

Very Likely Science (83)

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)

cran: bit64

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

Very Likely Science (75)

pypi: babylon

ML implementations in Python.
Papers that mentioned: 1

Very Likely Science (65)

cran: fcr

Functional Concurrent Regression for Sparse Data
Papers that mentioned: 1

Very Likely Science (93)

cran: partialOR

Partial Odds Ratio
Papers that mentioned: 1

Very Likely Science (75)

cran: partitionBEFsp

Methods for Calculating the Loreau & Hector 2001 BEF Partition
Papers that mentioned: 1

Very Likely Science (75)

cran: xtune

Regularized Regression with Feature-Specific Penalties Integrating External Information
Papers that mentioned: 1

Very Likely Science (100)

cran: partDSA

Partitioning Using Deletion, Substitution, and Addition Moves
Papers that mentioned: 1

Very Likely Science (83)

bioconductor: scry

Small-Count Analysis Methods for High-Dimensional Data
Papers that mentioned: 1

Very Likely Science (100)

pypi: autofeat

Automatic Feature Engineering and Selection Linear Prediction Model
Papers that mentioned: 1

Very Likely Science (65)

bioconductor: scRecover

scRecover for imputation of single-cell RNA-seq data
Papers that mentioned: 1

Very Likely Science (100)

cran: Bios2cor

From Biological Sequences and Simulations to Correlation Analysis
Papers that mentioned: 1

Very Likely Science (60)

pypi: babar

Elephants never forget.
Papers that mentioned: 1

Very Likely Science (65)

pypi: signac

Manage large and heterogeneous data spaces on the file system.
Papers that mentioned: 1

Very Likely Science (100)

cran: spind

Spatial Methods and Indices
Papers that mentioned: 1

Very Likely Science (100)

cran: fdadensity

Functional Data Analysis for Density Functions by Transformation to a Hilbert Space
Papers that mentioned: 1

Very Likely Science (100)

bioconductor: Sconify

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

Very Likely Science (100)

cran: pbatR

Pedigree/Family-Based Genetic Association Tests Analysis and Power
Papers that mentioned: 1

Very Likely Science (85)

cran: Biolinv

Modelling and Forecasting Biological Invasions
Papers that mentioned: 1

Very Likely Science (85)

cran: Biocomb

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

Very Likely Science (85)

cran: pawacc

Physical Activity with Accelerometers
Papers that mentioned: 1

Very Likely Science (83)

cran: bigutilsr

Utility Functions for Large-scale Data
Papers that mentioned: 1

Very Likely Science (70)

bioconductor: DEFormats

Differential gene expression data formats converter
Papers that mentioned: 1

Very Likely Science (100)

pypi: reda

Reproducible Electrical Data Analysis
Papers that mentioned: 1

Very Likely Science (100)

cran: bigleaf

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

Very Likely Science (100)

pypi: FlowIO

FlowIO is a Python library for reading / writing Flow Cytometry Standard (FCS) files
Papers that mentioned: 1

Very Likely Science (85)

cran: pBrackets

Plot Brackets
Papers that mentioned: 1

Very Likely Science (75)

cran: fdth

Frequency Distribution Tables, Histograms and Polygons
Papers that mentioned: 1

Very Likely Science (75)

cran: NetWeaver

Graphic Presentation of Complex Genomic and Network Data Analysis
Papers that mentioned: 1

Very Likely Science (100)

bioconductor: RTopper

This package is designed to perform Gene Set Analysis across multiple genomic platforms
Papers that mentioned: 1

Very Likely Science (100)

cran: pch

Piecewise Constant Hazard Models for Censored and Truncated Data
Papers that mentioned: 1

Very Likely Science (75)

cran: bgmm

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

Very Likely Science (85)

cran: ffmanova

Fifty-Fifty MANOVA
Papers that mentioned: 1

Very Likely Science (75)

cran: segclust2d

Bivariate Segmentation/Clustering Methods and Tools
Papers that mentioned: 1

Very Likely Science (75)

pypi: simmer

Stellar Image Maturation via Efficient Reduction
Papers that mentioned: 1

Very Likely Science (80)

bioconductor: RNAinteract

Estimate Pairwise Interactions from multidimensional features
Papers that mentioned: 1

Very Likely Science (90)

pypi: kcat

UNKNOWN
Papers that mentioned: 1

Very Likely Science (65)

cran: pcmabc

Approximate Bayesian Computations for Phylogenetic Comparative Methods
Papers that mentioned: 1

Very Likely Science (85)

cran: finch

Parse Darwin Core Files
Papers that mentioned: 1

Very Likely Science (100)

cran: rebmix

Finite Mixture Modeling, Clustering & Classification
Papers that mentioned: 1

Very Likely Science (93)

cran: FisHiCal

Iterative FISH-based Calibration of Hi-C Data
Papers that mentioned: 1

Very Likely Science (75)

bioconductor: RIPAT

Retroviral Integration Pattern Analysis Tool (RIPAT)
Papers that mentioned: 1

Very Likely Science (100)

bioconductor: ribosomeProfilingQC

Ribosome Profiling Quality Control
Papers that mentioned: 1

Very Likely Science (100)

cran: netstat

Retrieve Network Statistics Including Available TCP Ports
Papers that mentioned: 1

Very Likely Science (85)

pypi: aequitas

The bias and fairness audit toolkit.
Papers that mentioned: 1

Very Likely Science (100)

pypi: flower

Celery Flower
Papers that mentioned: 1

Very Likely Science (85)

bioconductor: rhdf5client

Access HDF5 content from HDF Scalable Data Service
Papers that mentioned: 1

Very Likely Science (83)

bioconductor: RepViz

Replicate oriented Visualization of a genomic region
Papers that mentioned: 1

Very Likely Science (100)

cran: PeakError

Compute the Label Error of Peak Calls
Papers that mentioned: 1

Very Likely Science (75)

bioconductor: RegEnrich

Gene regulator enrichment analysis
Papers that mentioned: 1

Very Likely Science (100)