Merge requests · bioinformatics / PanTools

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
Update developer documentation

!183 · created Jul 21, 2023 by Workum, Dirk-Jan van develop
- Merged
- 7
- Approved
updated Jul 21, 2023
Update to CI/CD reference commit

!182 · created Jul 18, 2023 by Workum, Dirk-Jan van develop
- Merged
- Approved
updated Jul 18, 2023
renamed all remaining occurences of core_snp tree except subcommand alias to core_phylogeny

!181 · created Jul 18, 2023 by Robin van Esch develop
- Merged
- Approved
updated Jul 18, 2023
Expanded the CI pipeline to include more subcommands and file comparisons. 57 of 57 checklist items completed

!178 · created Jul 10, 2023 by Robin van Esch develop
- Merged
- 15
- Approved
updated Jul 18, 2023
Fix `sequences.info` file in MSA input files

!180 · created Jul 17, 2023 by Workum, Dirk-Jan van develop
- Merged
- Approved
updated Jul 17, 2023
Fix #58

!176 · created Jun 28, 2023 by Workum, Dirk-Jan van develop
- Merged
- 3
- Approved
updated Jul 14, 2023
Add seed option to pangenome structure

!179 · created Jul 11, 2023 by Workum, Dirk-Jan van develop
- Merged
- 3
- Approved
updated Jul 14, 2023
add version 4.2.2 to pantools_v4 2 of 2 checklist items completed

!175 · created Jun 23, 2023 by Robin van Esch
- Merged
- Approved
updated Jun 23, 2023
updated version number to 4.2.2 2 of 2 checklist items completed

!174 · created Jun 23, 2023 by Robin van Esch develop
- Merged
- Approved
updated Jun 23, 2023
clean CI/CD pipeline

!173 · created Jun 23, 2023 by Workum, Dirk-Jan van develop
- Merged
- Approved
updated Jun 23, 2023
Update CI/CD end-to-end test 1 of 2 checklist items completed

!169 · created Jun 19, 2023 by Workum, Dirk-Jan van develop
- Merged
- 2
- Approved
updated Jun 22, 2023
Fix CI/CD pipeline

!172 · created Jun 22, 2023 by Workum, Dirk-Jan van develop
- Merged
- Approved
updated Jun 22, 2023
changed genomeNumbersFile in pantools map for selectGenomes

!170 · created Jun 22, 2023 by Robin van Esch develop
- Merged
- Approved
updated Jun 22, 2023
Replaced dead name with new name.

!171 · created Jun 22, 2023 by Robin van Esch develop
- Merged
- Approved
updated Jun 22, 2023
consensus_tree checks for untrimmed hm nodes

!168 · created Jun 15, 2023 by Robin van Esch develop
- Merged
- 2
- Approved
updated Jun 22, 2023
add default for -H in group_info

!166 · created Jun 09, 2023 by Robin van Esch develop
- Merged
- 6
- Approved
updated Jun 12, 2023
Fix CI/CD pipeline

!167 · created Jun 12, 2023 by Workum, Dirk-Jan van develop
- Merged
- Approved
updated Jun 12, 2023
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
Release v4.2.1

!163 · created Jun 02, 2023 by Workum, Dirk-Jan van
updated Jun 05, 2023