Merge requests · bioinformatics / PanTools

update KMC to version >=3.1.0

!203 · created Nov 20, 2023 by Workum, Dirk-Jan van develop
- Merged
- 4
- Approved
updated Nov 21, 2023
Add subgraph retrieval to GFA import/export

!199 · created Oct 17, 2023 by Workum, Dirk-Jan van add_gfa_export
updated Nov 14, 2023
Fix mode case insensitivity for ANI

!200 · created Nov 13, 2023 by Workum, Dirk-Jan van develop
- Merged
- Approved
updated Nov 14, 2023
Phased pangenomics functionalities

!148 · created Mar 30, 2023 by Jonkheer, Eef develop
- Merged
- 209
- Approved
updated Nov 03, 2023
Fixed ignoring untrimmed MSA for core_phylogeny and consensus_tree

!197 · created Oct 03, 2023 by Workum, Dirk-Jan van develop
- Merged
- 4
- Approved
updated Oct 06, 2023
Restore the use of MSA for phylogenetics 4 of 4 checklist items completed

!195 · created Sep 05, 2023 by Workum, Dirk-Jan van develop
- Merged
- 21
- Approved
updated Oct 03, 2023
release 4.2.3 with several bugfixes

!194 · created Sep 01, 2023 by Robin van Esch
- Merged
- Approved
updated Sep 22, 2023
updated version number for new release

!193 · created Sep 01, 2023 by Robin van Esch develop
updated Sep 22, 2023
Fix distinct count kmers in kmer_classification for subsets of genomes

!196 · created Sep 22, 2023 by Workum, Dirk-Jan van develop
- Merged
- Approved
updated Sep 22, 2023
Reduce build_pangenome logging

!192 · created Sep 01, 2023 by Workum, Dirk-Jan van develop
- Merged
- Approved
updated Sep 01, 2023
Updating the way remove_functions works in documentation

!189 · created Aug 23, 2023 by Workum, Dirk-Jan van develop
- Merged
- 7
- Approved
updated Aug 31, 2023
Fix signalP typo in group_info and refactor method

!190 · created Aug 23, 2023 by Workum, Dirk-Jan van develop
- Merged
- 4
- Approved
updated Aug 29, 2023
Kmc now uses threads instead of cores

!191 · created Aug 28, 2023 by Robin van Esch develop
bug
- Merged
- 1
- Approved
updated Aug 29, 2023
Fix group_info -H documentation

!188 · created Aug 21, 2023 by Workum, Dirk-Jan van develop
- Merged
- Approved
updated Aug 21, 2023
Fix workflow panproteome kmer_classification

!184 · created Aug 14, 2023 by Workum, Dirk-Jan van develop
- Merged
- Approved
updated Aug 21, 2023
Update reference commit CI/CD pipeline

!187 · created Aug 16, 2023 by Workum, Dirk-Jan van develop
- Merged
- Approved
updated Aug 16, 2023
fix trimming of MSA

!186 · created Aug 15, 2023 by Workum, Dirk-Jan van develop
- Merged
- 9
- Approved
updated Aug 16, 2023
Change default input sequence type behavior for MSA

!142 · created Mar 20, 2023 by Workum, Dirk-Jan van develop
- Merged
- 9
- Approved
updated Aug 15, 2023
Fix mistake in msa --phenotype documentation

!185 · created Aug 15, 2023 by Workum, Dirk-Jan van develop
- Merged
- Approved
updated Aug 15, 2023
New phenotype msa output 5 of 5 checklist items completed

!145 · created Mar 22, 2023 by Jonkheer, Eef develop
- Merged
- 113
- Approved
updated Aug 15, 2023