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/s13059-021-02293-3

https://doi.org/10.1186/s13059-021-02293-3

Cited by: 47
Author(s): Drew Neavin, Quan Nguyen, Maciej Daniszewski, Helena Liang, Han Sheng Chiu, Yong Kiat Wee, Anne Senabouth, Samuel W. Lukowski, Duncan E. Crombie, Grace E. Lidgerwood, Damián Hernández, James C. Vickers, Anthony Cook, Nathan J. Palpant, Alice Pébay, Alex W. Hewitt, Joseph E. Powell
Published: about 3 years ago

Software Mentions 12

bioconductor: AUCell
AUCell: Analysis of 'gene set' activity in single-cell RNA-seq data (e.g. identify cells with specific gene signatures)
Papers that mentioned: 45
bioconductor: ComplexHeatmap
Make Complex Heatmaps
Papers that mentioned: 565
bioconductor: edgeR
Empirical Analysis of Digital Gene Expression Data in R
Papers that mentioned: 6,568
bioconductor: Gviz
Plotting data and annotation information along genomic coordinates
Papers that mentioned: 134
bioconductor: RcisTarget
RcisTarget Identify transcription factor binding motifs enriched on a list of genes or genomic regions
Papers that mentioned: 55
bioconductor: SingleR
Reference-Based Single-Cell RNA-Seq Annotation
Papers that mentioned: 97
cran: cellranger
Translate Spreadsheet Cell Ranges to Rows and Columns
Papers that mentioned: 79
cran: Eagle
Multiple Locus Association Mapping on a Genome-Wide Scale
Papers that mentioned: 140
cran: LDlinkR
Calculating Linkage Disequilibrium (LD) in Human Population Groups of Interest
Papers that mentioned: 10
cran: STAR
Spike Train Analysis with R
Papers that mentioned: 5,759
pypi: custom
Custom self carry
Papers that mentioned: 1,363
pypi: ggplot
ggplot for python
Papers that mentioned: 796