CHANGELOG

## [0.2.13] - 2024-02-02
### Changed
  - cmsearch --incE 0.2 argument is added to the cmsearch command. 
  - fewer than 50 nucleotides are not considered as a hit anymore.
  - GFF files have "MirMachine" and "microRNA" fields that replaced the previous fields.
  - Some bug fixes and improvements.
## Added
  - microRNA score reported in GFF files.
  - microRNA losses reported in GFF files
  - Seed match reported in FASTA headers with seeds.

## [0.2.12] - 2023-02-17
### Changed
  - Minor change, heatmap file node, query_node update

## [0.2.11.2022] - 2022-02-28
### Changed
- MirGeneDB v2.1(2022)
- Proto: 143 but 326 models available
- Deutero: 388 but 825 models available
- Combined: 509 but 1157 models available
### Added
- Some minor additions.

## [0.2.11.2] - 2021-12-29
### Added
- Family and node printing.
- Exception handling for wrong model selection.
- Exception handling for single family mode.
### Changed
- New header for GFFs.
- Snakemake workflow update to better handle output files.

## [0.2.11.1] - 2021-09-29
### Changed
- Bioconda installation problem is fixed by updating requirements.txt.

## [0.2.11] - 2021-05-17
### Added
- Some features were added to main executable such as printing ascii tree, nodes etc.
### Changed
- Tree parser now using re.search function. This can potentially cause a different behaviour.

## [0.2.10] - 2021-05-12
### Changed
- Versioning

## [0.2.1a] - 2021-05-12
### Changed
- MirGeneDB v2.1
- Proto: 315 
- Deutero: 825 
- Combined: 1146

## [0.1.31] - 2021-03-09
### Added
- Headers for GFFs files.
- Single family and single node run options.

## [0.1.2] - 2020-12-05
### Added
- MirGeneDB v2.0
- Proto: 304
- Deutero: 782
- Combined: 1054