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.

Papers: 10.1186/s13059-016-0940-1

https://doi.org/10.1186/s13059-016-0940-1

A benchmark for RNA-seq quantification pipelines

Cited by: 146
Author(s): Mingxiang Teng, Michael I. Love, Carrie A. Davis, Sarah Djebali, Alexander Dobin, Brenton R. Graveley, Sheng Li, Christopher E. Mason, Sara Olson, Dmitri D. Pervouchine, Cricket A. Sloan, Xintao Wei, Lijun Zhan, Rafael A. Irizarry
Published: over 8 years ago

Software Mentions 7

bioconductor: alpine

alpine
Papers that mentioned: 2

bioconductor: DESeq2

Differential gene expression analysis based on the negative binomial distribution
Papers that mentioned: 9,583

bioconductor: edgeR

Empirical Analysis of Digital Gene Expression Data in R
Papers that mentioned: 6,568

bioconductor: rnaseqcomp

Benchmarks for RNA-seq Quantification Pipelines
Papers that mentioned: 2

cran: STAR

Spike Train Analysis with R
Papers that mentioned: 5,759

pypi: alpine

Alpine Web API Client
Papers that mentioned: 2

pypi: kallisto

The Kallisto software enables the efficient calculation of atomic features that can be used within a quantitative structure-activity relationship (QSAR) approach. Furthermore, several modelling helpers are implemented.
Papers that mentioned: 307