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/s13059-021-02260-y

https://doi.org/10.1186/s13059-021-02260-y

LINE retrotransposons characterize mammalian tissue-specific and evolutionarily dynamic regulatory regions

Cited by: 31
Author(s): Maša Roller, Ericca L. Stamper, Diego Villar, Osagie Izuogu, Fergal J. Martin, Aisling M. Redmond, Raghavendra Ramachanderan, Louise Harewood, Duncan T. Odom, Paul Flicek
Published: almost 4 years ago

Software Mentions 8

bioconductor: DESeq2
Differential gene expression analysis based on the negative binomial distribution
Papers that mentioned: 9,583
cran: ggplot2
Create Elegant Data Visualisations Using the Grammar of Graphics
Papers that mentioned: 11,441
cran: gplots
Various R Programming Tools for Plotting Data
Papers that mentioned: 2,122
cran: STAR
Spike Train Analysis with R
Papers that mentioned: 5,759
cran: UpSetR
A More Scalable Alternative to Venn and Euler Diagrams for Visualizing Intersecting Sets
Papers that mentioned: 319
pypi: Circos
Circos plots in Python!
Papers that mentioned: 2,252
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