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/s12859-016-1298-9

https://doi.org/10.1186/s12859-016-1298-9

Evaluating tools for transcription factor binding site prediction

Cited by: 75
Author(s): Narayan Jayaram, Daniel Usvyat, Andrew C.R. Martin
Published: about 8 years ago

Software Mentions 6

bioconductor: biomaRt
Interface to BioMart databases (i.e. Ensembl)
Papers that mentioned: 446
bioconductor: ChIPpeakAnno
Batch annotation of the peaks identified from either ChIP-seq, ChIP-chip experiments or any experiments resulted in large number of chromosome ranges
Papers that mentioned: 145
bioconductor: rGADEM
de novo motif discovery
Papers that mentioned: 8
cran: JASPAR
R modules for JASPAR databases: a collection of transcription factor DNA-binding preferences, modeled as matrices
Papers that mentioned: 1,283
pypi: Comet
VOEvent Broker
Papers that mentioned: 248
pypi: MACS
Model Based Analysis for ChIP-Seq data
Papers that mentioned: 1,233