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/giy123

https://doi.org/10.1093/gigascience/giy123

Cited by: 51
Author(s): Ricardo Wurmus, Bora Uyar, Brendan Osberg, Vedran Franke, Alexander Gosdschan, Katarzyna Wreczycka, Jonathan Ronen, Altuna Akalin
Published: over 5 years ago

Software Mentions 15

bioconductor: bsseq

Analyze, manage and store bisulfite sequencing data
Papers that mentioned: 38

bioconductor: chipseq

chipseq: A package for analyzing chipseq data
Papers that mentioned: 9

bioconductor: DESeq2

Differential gene expression analysis based on the negative binomial distribution
Papers that mentioned: 9,583

bioconductor: GenomicRanges

Representation and manipulation of genomic intervals
Papers that mentioned: 323

bioconductor: iSEE

Interactive SummarizedExperiment Explorer
Papers that mentioned: 13

bioconductor: netSmooth

Network smoothing for scRNAseq
Papers that mentioned: 8

bioconductor: scran

Methods for Single-Cell RNA-Seq Data Analysis
Papers that mentioned: 113

bioconductor: SingleCellExperiment

S4 Classes for Single Cell Data
Papers that mentioned: 36

bioconductor: zinbwave

Zero-Inflated Negative Binomial Model for RNA-Seq Data
Papers that mentioned: 12

cran: pheatmap

Pretty Heatmaps
Papers that mentioned: 2,572

cran: STAR

Spike Train Analysis with R
Papers that mentioned: 5,759

pypi: diffoscope

in-depth comparison of files, archives, and directories
Papers that mentioned: 1

pypi: guix

Make faster cross platform GUI
Papers that mentioned: 1

pypi: loompy

Work with Loom files for single-cell RNA-seq data
Papers that mentioned: 1

pypi: MACS2

Model Based Analysis for ChIP-Seq data
Papers that mentioned: 1,203