Releases: epigen/spilterlize_integrate
Releases · epigen/spilterlize_integrate
v2.0.1 - Enable module usage using `github()` directive
- to enable module usage using
github()directive- comment
global.yaml(now requires full snakemake installation, not minimal)
- comment
- add nodefaults to all env YAML
Full Changelog: v2.0.0...v2.0.1
v2.0.0 - Snakemake 8 compatible
Breaking change: Requires Snakemake >= v8.20.1.
Full Changelog: v1.2.0...v2.0.0
v1.2.0 - Correlation Heatmaps
Features
- Correlation Heatmaps
- Heatmap of sample-wise Pearson correlation matrix of the respective data split and processing step to quickly assess sample similarities e.g., replicates/conditions should correlate highly but batch should not.
- Hierarchically clustered using method 'complete' with distance metric 'euclidean'.
- Alphabetically sorted by sample name.
Full Changelog: v1.1.0...v1.2.0
v1.1.0 - Confounding Factor Analysis
Features
- Confounding Factor Analysis (CFA): Added a new feature to assess and visualize the statistical associations between metadata and principal components (PCs) using Kruskal-Wallis (categorical) and Kendall's Tau (numeric) tests, with results displayed as a heatmap of -log10 adjusted p-values.
- Added VOOM normalization-specific Mean-Variance trend plot.
- Improved visualization of the mean-variance relationship in the diagnostic plot using hexagonal heatmaps of 2d bin counts.
Bugfixes
- fixed reComBat pip dependency issue using Snakemake's post-deployment script functionality.
Documentation
- Tested on ATAC-seq count data from >200 samples.
- Tested step-wise with minimal to maximal conjugations (i.e., from splitting up to integration).
- Added other assays that could benefit from this module to the README.
- Updated documentation with new features.
- Added new visualizations to the Snakemake report.
Full Changelog: v1.0.1...v1.1.0
fix CITATION.cff
v1.0.1 Update CITATION.cff