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: 10.1371/journal.pone.0016432
https://doi.org/10.1371/journal.pone.0016432
An Integrated Pipeline for the Genome-Wide Analysis of Transcription Factor Binding Sites from ChIP-Seq
Cited by: 41
Author(s): Eloi Mercier, Arnaud Droit, Leping Li, Gordon Robertson, Xuekui Zhang, Raphaël Gottardo
Published: almost 14 years ago
Software Mentions 11
bioconductor: BSgenome
Software infrastructure for efficient representation of full genomes and their SNPsPapers that mentioned: 47
bioconductor: ChIPpeakAnno
Batch annotation of the peaks identified from either ChIP-seq, ChIP-chip experiments or any experiments resulted in large number of chromosome rangesPapers that mentioned: 145
bioconductor: GenomicRanges
Representation and manipulation of genomic intervalsPapers that mentioned: 323
bioconductor: IRanges
Foundation of integer range manipulation in BioconductorPapers that mentioned: 62
bioconductor: rtracklayer
R interface to genome annotation files and the UCSC genome browserPapers that mentioned: 107
cran: JASPAR
R modules for JASPAR databases: a collection of transcription factor DNA-binding preferences, modeled as matricesPapers that mentioned: 1,283
pypi: STAMP
A graphical software package for analyzing taxonomic and functional profiles.Papers that mentioned: 1,190