Merge requests · bioinformatics / PanTools

Fixed core_accessory_unique_size.csv being referred to as...

!165 · created Jun 08, 2023 by Robin van Esch develop
- Merged
- Approved
updated Jun 08, 2023
Merge branch develop into phased_pangenomics 5 of 5 checklist items completed

!164 · created Jun 06, 2023 by Workum, Dirk-Jan van phased_pangenomics
- Merged
- 1
- Approved
updated Jul 21, 2023
Release v4.2.1

!163 · created Jun 02, 2023 by Workum, Dirk-Jan van
updated Jun 05, 2023
Update pantools version to 4.2.1

!162 · created Jun 02, 2023 by Workum, Dirk-Jan van develop
- Merged
- Approved
updated Jun 05, 2023
Fix default settings for 'pantools group'

!161 · created May 22, 2023 by Workum, Dirk-Jan van develop
- Merged
- Approved
updated May 22, 2023
Update readthedocs documentation 6 of 6 checklist items completed

!160 · created May 15, 2023 by Workum, Dirk-Jan van develop
- Merged
- 2
- Approved
updated Jun 02, 2023
Add check whether bcftools and tabix exist before running add_variants

!159 · created May 08, 2023 by Workum, Dirk-Jan van develop
- Merged
- Approved
updated May 22, 2023
Draft: Update PanTools dependencies 8 of 11 checklist items completed

!158 · created May 08, 2023 by Workum, Dirk-Jan van develop
- 2
updated Aug 12, 2024
Fix protein specific FastTree option

!157 · created May 08, 2023 by Workum, Dirk-Jan van develop
- Merged
- Approved
updated May 22, 2023
Changes from v4.2.0 to develop

!156 · created May 08, 2023 by Workum, Dirk-Jan van develop
updated May 08, 2023
Fix readthedocs.io documentation build

!155 · created May 08, 2023 by Workum, Dirk-Jan van
- Merged
- Approved
updated May 08, 2023
Merge release 4.2.0 into pantools_v4

!154 · created May 04, 2023 by Robin van Esch
- Merged
- Approved
updated May 08, 2023
Updated version number for new release 4.2.0

!153 · created May 04, 2023 by Robin van Esch develop
- Merged
- Approved
updated May 08, 2023
Fix "no such property, 'protein_ID'" for `pantools add_variants`

!152 · created Apr 28, 2023 by Workum, Dirk-Jan van develop
- Merged
- 1
- Approved
updated May 04, 2023
Fix filenames msa & core_phylogeny

!151 · created Apr 25, 2023 by Workum, Dirk-Jan van develop
- Merged
- Approved
updated Apr 28, 2023
Draft: Removing genomes from an existing pangenome.

!150 · created Mar 31, 2023 by Lankveld, Thijs van develop
- 1
updated Mar 31, 2023
Added `Pantools.logger` instead of `System.out.print*`

!149 · created Mar 30, 2023 by Ahmed, Nauman develop
enhancement
- Merged
- Approved
updated Apr 03, 2023
Phased pangenomics functionalities

!148 · created Mar 30, 2023 by Jonkheer, Eef develop
- Merged
- 209
- Approved
updated Nov 03, 2023
Add (sub)graph export (AKA region of interest) 30 of 31 checklist items completed

!147 · created Mar 29, 2023 by Workum, Dirk-Jan van develop
- 10
updated Nov 18, 2024
Updated CLI for new functions.

!146 · created Mar 23, 2023 by Robin van Esch phased_pangenomics
updated Mar 25, 2023