grandR - Comprehensive Analysis of Nucleotide Conversion Sequencing Data
Nucleotide conversion sequencing experiments have been developed to add a temporal dimension to RNA-seq and single-cell RNA-seq. Such experiments require specialized tools for primary processing such as GRAND-SLAM, (see 'Jürges et al' <doi:10.1093/bioinformatics/bty256>) and specialized tools for downstream analyses. 'grandR' provides a comprehensive toolbox for quality control, kinetic modeling, differential gene expression analysis and visualization of such data.
Last updated 10 months ago
5.16 score 8 stars 18 scripts 239 downloadslfc - Log Fold Change Distribution Tools for Working with Ratios of Counts
Ratios of count data such as obtained from RNA-seq are modelled using Bayesian statistics to derive posteriors for effects sizes. This approach is described in Erhard & Zimmer (2015) <doi:10.1093/nar/gkv696> and Erhard (2018) <doi:10.1093/bioinformatics/bty471>.
Last updated 2 years ago
bayesiantranscriptomicsdifferentialexpression
5.02 score 7 stars 1 packages 5 scripts 241 downloads