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/s12859-017-1847-x

https://doi.org/10.1186/s12859-017-1847-x

Tissue-aware RNA-Seq processing and normalization for heterogeneous and sparse data

Cited by: 42
Author(s): Joseph N. Paulson, Cho-Yi Chen, Camila M. Lopes‐Ramos, Marieke L. Kuijjer, John Platig, Abhijeet R. Sonawane, Maud Fagny, Kimberly Glass, John Quackenbush
Published: about 7 years ago

Software Mentions 10

bioconductor: Biobase
Biobase: Base functions for Bioconductor
Papers that mentioned: 104
bioconductor: biomaRt
Interface to BioMart databases (i.e. Ensembl)
Papers that mentioned: 446
bioconductor: edgeR
Empirical Analysis of Digital Gene Expression Data in R
Papers that mentioned: 6,568
bioconductor: limma
Linear Models for Microarray Data
Papers that mentioned: 7,776
bioconductor: qsmooth
Smooth quantile normalization
Papers that mentioned: 3
cran: gplots
Various R Programming Tools for Plotting Data
Papers that mentioned: 2,122
cran: matrixStats
Functions that Apply to Rows and Columns of Matrices (and to Vectors)
Papers that mentioned: 46
cran: RColorBrewer
ColorBrewer Palettes
Papers that mentioned: 490
pypi: pipeline
Easy shell-like pipelines, with input from a file-like object
Papers that mentioned: 175
pypi: voom
A python message bus that you can put 4 million volts through.
Papers that mentioned: 136