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: 10.7554/eLife.36187

https://doi.org/10.7554/eLife.36187

Cited by: 167
Author(s): Mark F Sabbagh, Jacob S Heng, Chongyuan Luo, Rosa Castanon, Joseph R. Nery, Amir Rattner, Loyal A. Goff, Joseph R. Ecker, Jeremy Nathans
Published: over 5 years ago

Software Mentions 10

bioconductor: DESeq2
Differential gene expression analysis based on the negative binomial distribution
Papers that mentioned: 9,583
bioconductor: DiffBind
Differential Binding Analysis of ChIP-Seq Peak Data
Papers that mentioned: 217
bioconductor: EBSeq
An R package for gene and isoform differential expression analysis of RNA-seq data
Papers that mentioned: 261
bioconductor: MethylSeekR
Segmentation of Bis-seq data
Papers that mentioned: 33
cran: cellranger
Translate Spreadsheet Cell Ranges to Rows and Columns
Papers that mentioned: 79
cran: ggplot2
Create Elegant Data Visualisations Using the Grammar of Graphics
Papers that mentioned: 11,441
cran: pheatmap
Pretty Heatmaps
Papers that mentioned: 2,572
cran: tidyverse
Easily Install and Load the 'Tidyverse'
Papers that mentioned: 1,023
pypi: deepTools
Useful tools for exploring deep sequencing data.
Papers that mentioned: 435
pypi: MACS2
Model Based Analysis for ChIP-Seq data
Papers that mentioned: 1,203