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/s12920-017-0274-1

https://doi.org/10.1186/s12920-017-0274-1

Quantitative analysis of cryptic splicing associated with TDP-43 depletion

Cited by: 74
Author(s): Jack Humphrey, Warren Emmett, Pietro Fratta, Adrian M. Isaacs, Vincent Plagnol
Published: over 7 years ago

Software Mentions 14

bioconductor: DESeq2
Differential gene expression analysis based on the negative binomial distribution
Papers that mentioned: 9,583
bioconductor: DEXSeq
Inference of differential exon usage in RNA-Seq
Papers that mentioned: 226
bioconductor: GenomicRanges
Representation and manipulation of genomic intervals
Papers that mentioned: 323
bioconductor: SGSeq
Splice event prediction and quantification from RNA-seq data
Papers that mentioned: 14
cran: dplyr
A Grammar of Data Manipulation
Papers that mentioned: 1,213
cran: ggplot2
Create Elegant Data Visualisations Using the Grammar of Graphics
Papers that mentioned: 11,441
cran: gridExtra
Miscellaneous Functions for "Grid" Graphics
Papers that mentioned: 298
cran: optparse
Command Line Option Parser
Papers that mentioned: 15
cran: plyr
Tools for Splitting, Applying and Combining Data
Papers that mentioned: 468
cran: STAR
Spike Train Analysis with R
Papers that mentioned: 5,759
cran: stringr
Simple, Consistent Wrappers for Common String Operations
Papers that mentioned: 172
cran: tidyr
Tidy Messy Data
Papers that mentioned: 321
pypi: HTSeq
A framework to process and analyze data from high-throughput sequencing (HTS) assays
Papers that mentioned: 3,071
pypi: plyr
UNKNOWN
Papers that mentioned: 468