An open API service providing mapping between scientific papers and software projects that are mentioned in them.

Papers: 10.1186/s13059-020-02070-8

https://doi.org/10.1186/s13059-020-02070-8

The regulatory landscape of early maize inflorescence development

Cited by: 28
Author(s): Rajiv Krishna Parvathaneni, Edoardo Bertolini, Md. Shamimuzzaman, Daniel Vera, Pei Yau Lung, Brian R. Rice, Jinfeng Zhang, Patrick J. Brown, Alexander E. Lipka, Hank W. Bass, Andrea L. Eveland
Published: about 5 years ago

Software Mentions 12

bioconductor: GenomicFeatures
Conveniently import and query gene models
Papers that mentioned: 141
Very Likely Science (90)
bioconductor: GenomicRanges
Representation and manipulation of genomic intervals
Papers that mentioned: 323
Very Likely Science (90)
bioconductor: IRanges
Foundation of integer range manipulation in Bioconductor
Papers that mentioned: 62
Very Likely Science (75)
bioconductor: tximport
Import and summarize transcript-level estimates for transcript- and gene-level analysis
Papers that mentioned: 367
Very Likely Science (100)
cran: JASPAR
R modules for JASPAR databases: a collection of transcription factor DNA-binding preferences, modeled as matrices
Papers that mentioned: 1,283
Very Likely Science (75)
cran: WGCNA
Weighted Correlation Network Analysis
Papers that mentioned: 3,479
Very Likely Science (85)
pypi: Circos
Circos plots in Python!
Papers that mentioned: 2,252
Very Likely Science (100)
pypi: CrossMap
Lift over genomics coordinates between assemblies
Papers that mentioned: 68
Very Likely Science (90)
pypi: MACS
Model Based Analysis for ChIP-Seq data
Papers that mentioned: 1,233
Very Likely Science (75)
pypi: MACS2
Model Based Analysis for ChIP-Seq data
Papers that mentioned: 1,203
Very Likely Science (100)
pypi: py
library with cross-python path, ini-parsing, io, code, log facilities
Papers that mentioned: 403
Very Likely Science (65)
pypi: tassel
Papers that mentioned: 11
Very Likely Science (65)