# cinaR 0.2.6

- Fixed plotting helpers (pheatmap `...`, dot-plot scale, PCA palette)
- Wired `norm.method`/`filter.method` into the pipeline
- Made `run_enrichment()` more robust to input shape and empty contrasts
- Added `prep_scATAC_seurat()` helper for Seurat/Signac objects

# cinaR 0.2.5

- Added scATAC preprocessing helper `prep_scATAC_cinaR()` and vignette example
- Added package citation file and updated preprint URL
- Guarded `annotatePeaks()` for missing `ChIPseeker`
- Fixed upcoming CRAN checks

# cinaR 0.2.4

- Bug fix and changes:
  - Bioconductor related packages are suggested
  - Added .on_attach() for smooth CRAN checks

# cinaR 0.2.3

- Minor improvements

# cinaR 0.2.2

- Added:
  - `comparison.scheme` either set to `OVO` (default) which will compare each contrasts to each other. If it's set to `OVA` each contrast will be compared to rest.

# cinaR 0.2.1

- Added:
  - An extra argument `sv.number` is added if user wants to set the number of surrogate variables.  
    More info [here](https://bioconductor.org/packages/release/bioc/vignettes/sva/inst/doc/sva.pdf).
  - `verbose` argument, default set to `TRUE`. I think, I have implemented this in a really cool way!
  - [`cinaRgenesets`](https://github.com/eonurk/cinaR-genesets) added to vignette.

# cinaR 0.2.0

- Added:
  - `heatmap_differential` function to be able to plot the heatmaps
    of a given comparison.
  - `show_comparisons` is added to see the available comparisons
    before you plot differential heatmaps.

- Changed:
  - `heatmap_plot` is now renamed to `heatmap_var_peaks`, which makes more sense.

# cinaR 0.1.1

This version is even cooler, lol:

- Comparisons are now sorted according to `contrast` order
- Added bulk RNA-seq support/documentation
- Removed many dependencies
- Small bug fixes and improvements

# cinaR 0.1.0

- `cinaR` is published in CRAN repository!
