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: 10.1093/gigascience/giz147

https://doi.org/10.1093/gigascience/giz147

Genome-wide analysis of the H3K27me3 epigenome and transcriptome in Brassica rapa

Cited by: 16
Author(s): Miriam Payá‐Milans, Laura Poza‐Viejo, Patxi San Martín-Úriz, David Lara‐Astiaso, Mark D. Wilkinson, Pedro Crevillén
Published: almost 5 years ago

Software Mentions 8

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: DESeq2
Differential gene expression analysis based on the negative binomial distribution
Papers that mentioned: 9,583
cran: SEA
Segregation Analysis
Papers that mentioned: 238
pypi: docker
A Python library for the Docker Engine API.
Papers that mentioned: 39
pypi: epic2
Ultraperformant ChIP-Seq broad peak/domain finder.
Papers that mentioned: 3
pypi: HTSeq
A framework to process and analyze data from high-throughput sequencing (HTS) assays
Papers that mentioned: 3,071
pypi: MACS2
Model Based Analysis for ChIP-Seq data
Papers that mentioned: 1,203
pypi: MAnorm
A robust model for quantitative comparison of ChIP-Seq data sets
Papers that mentioned: 42