Merge requests · bioinformatics / PanTools

Fix `--seed` for `pantools pangenome_structure`

!205 · created Nov 21, 2023 by Workum, Dirk-Jan van develop
- Merged
- Approved
updated Nov 21, 2023
update reference version for ci pipeline

!204 · created Nov 21, 2023 by Robin van Esch develop
- Merged
- 1
- Approved
updated Nov 21, 2023
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
Msa var inf positions optimalization

!202 · created Nov 16, 2023 by Robin van Esch develop
- Merged
- 5
- Approved
updated Nov 24, 2023
Documentation shuffle

!201 · created Nov 14, 2023 by Robin van Esch develop
- Merged
- 51
- Approved
updated Nov 23, 2023
Fix mode case insensitivity for ANI

!200 · created Nov 13, 2023 by Workum, Dirk-Jan van develop
- Merged
- Approved
updated Nov 14, 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
Draft: construct pangenome database from GFA 5 of 8 checklist items completed

!198 · created Oct 13, 2023 by Workum, Dirk-Jan van add_gfa_export
- 1
updated Sep 27, 2024
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
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
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
Reduce build_pangenome logging

!192 · created Sep 01, 2023 by Workum, Dirk-Jan van develop
- Merged
- Approved
updated Sep 01, 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 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
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 group_info -H documentation

!188 · created Aug 21, 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