Seqnado

What's Changed
* fix(spike-in): Add the ability to scale runtime for spike-in ChIP by alsmith151 in https://github.com/alsmith151/SeqNado/pull/206
* chore(deps): update pulp requirement from <=2.7.0 to <=2.9.0 by dependabot in https://github.com/alsmith151/SeqNado/pull/200
* feat(config): add 'seacr' as an option for peak calling method by alsmith151 in https://github.com/alsmith151/SeqNado/pull/212
* feat(geo submission): Place files in correct directory and make GEO required metadata by alsmith151 in https://github.com/alsmith151/SeqNado/pull/211
* feat(plotnado visualisation): Generates genome browser style tracks if requested by alsmith151 in https://github.com/alsmith151/SeqNado/pull/213
* Fix bug when plotting not specified by alsmith151 in https://github.com/alsmith151/SeqNado/pull/214
* Bugfixes and improvements by alsmith151 in https://github.com/alsmith151/SeqNado/pull/219
* Develop by CChahrour in https://github.com/alsmith151/SeqNado/pull/225
* fix(geo submission): Handle AttributeError when GEO submission not selected by alsmith151 in https://github.com/alsmith151/SeqNado/pull/223


**Full Changelog**: https://github.com/alsmith151/SeqNado/compare/v0.5.4...v0.6.0

What's Changed
* fix(seacr-peak-calling): Corrects issues encountered when running seacr by alsmith151 in https://github.com/alsmith151/SeqNado/pull/203
* fix pileup for seacr by CChahrour in https://github.com/alsmith151/SeqNado/pull/204
* Fix seacr by CChahrour in https://github.com/alsmith151/SeqNado/pull/205


**Full Changelog**: https://github.com/alsmith151/SeqNado/compare/v0.5.3...v0.5.4

What's Changed
* Fix(docs) correct install instructions by alsmith151 in https://github.com/alsmith151/SeqNado/pull/201
* feat(pipeline): Added -s/--scale-resources option to allow for scaling resources (memory and time) by alsmith151 in https://github.com/alsmith151/SeqNado/pull/202


**Full Changelog**: https://github.com/alsmith151/SeqNado/compare/v0.5.2...v0.5.3

What's Changed
* fix: ensure pipeline starts in fully resolved directory by alsmith151 in https://github.com/alsmith151/SeqNado/pull/184
* feat: Reinstate snp pipeline by alsmith151 in https://github.com/alsmith151/SeqNado/pull/185
* fix: corrects scaling of bigwigs using csaw like method by alsmith151 in https://github.com/alsmith151/SeqNado/pull/188
* feat: seqnado-design will use the symlink name rather than the resolved path by alsmith151 in https://github.com/alsmith151/SeqNado/pull/189
* fix: heatmaps always created and peak files absent by alsmith151 in https://github.com/alsmith151/SeqNado/pull/183
* Fix macs output naming by alsmith151 in https://github.com/alsmith151/SeqNado/pull/186
* Fix se with inputs by CChahrour in https://github.com/alsmith151/SeqNado/pull/190
* Develop by CChahrour in https://github.com/alsmith151/SeqNado/pull/192
* Develop by CChahrour in https://github.com/alsmith151/SeqNado/pull/193
* Develop by CChahrour in https://github.com/alsmith151/SeqNado/pull/194
* Develop by CChahrour in https://github.com/alsmith151/SeqNado/pull/196
* Merge faster tests by CChahrour in https://github.com/alsmith151/SeqNado/pull/198
* Merge develop with faster tests by CChahrour in https://github.com/alsmith151/SeqNado/pull/199


**Full Changelog**: https://github.com/alsmith151/SeqNado/compare/v0.5.1...v0.5.2

What's Changed
* Add Codecov for coverage reports by alsmith151 in https://github.com/alsmith151/SeqNado/pull/176
* Update pileup_method and peak_calling_method to be optional by alsmith151 in https://github.com/alsmith151/SeqNado/pull/177
* Feat increase setup verbosity by alsmith151 in https://github.com/alsmith151/SeqNado/pull/180
* Refactor name_control assignment in DesignIP class by alsmith151 in https://github.com/alsmith151/SeqNado/pull/181
* Refactor design. by alsmith151 in https://github.com/alsmith151/SeqNado/pull/182


**Full Changelog**: https://github.com/alsmith151/SeqNado/compare/v0.5.0...v0.5.1

What's Changed
* feat: Refactor of design and add spike-in support by alsmith151 in https://github.com/alsmith151/SeqNado/pull/157
* fix: correct bugs found on interacting with slurm scheduler by alsmith151 in https://github.com/alsmith151/SeqNado/pull/158
* Fix add library complexity by CChahrour in https://github.com/alsmith151/SeqNado/pull/159
* Fix add library complexity by alsmith151 in https://github.com/alsmith151/SeqNado/pull/161
* fix library complexity by CChahrour in https://github.com/alsmith151/SeqNado/pull/162
* update python version for precommit by CChahrour in https://github.com/alsmith151/SeqNado/pull/163
* Feat add transcript counting by CChahrour in https://github.com/alsmith151/SeqNado/pull/167
* moved macs format to config by CChahrour in https://github.com/alsmith151/SeqNado/pull/169
* fix: no such file or directory error when running on the cluster by alsmith151 in https://github.com/alsmith151/SeqNado/pull/171
* fix: update make_ucsc_hub script to enable grouping by scaling by alsmith151 in https://github.com/alsmith151/SeqNado/pull/172
* fix(docs): wrong python version used for building docs by alsmith151 in https://github.com/alsmith151/SeqNado/pull/173
* fix(docs): update docs for new snakemake version by alsmith151 in https://github.com/alsmith151/SeqNado/pull/174
* Feat parameterise quarto by alsmith151 in https://github.com/alsmith151/SeqNado/pull/170
* Feat add seacr by alsmith151 in https://github.com/alsmith151/SeqNado/pull/160


**Full Changelog**: https://github.com/alsmith151/SeqNado/compare/v0.4.3...v0.5.0