Data Release v7.4

What's Changed

• Age info only accept integers, empty, or specified non-standard ages by @HarryHung in #102
• Improve non-standard ages by @HarryHung in #103

Full Changelog: v7.3...v7.4

Data Release v7.3

What's Changed

• US CDC age info resolution reduction by @HarryHung in #101

Full Changelog: v7.2...v7.3

Data Release v7.2

What's Changed

• Improve lookup tables by @HarryHung in #96
• Add new locations by @HarryHung in #97
• Update SPE_AU1 Public_name by @HarryHung in #98
• Add Public_name of SPE_US2, SPE_US4, SPE_MA1 by @HarryHung in #99
• Add new GPSCs in PopPUNK GPS Database v11 by @HarryHung in #100

Full Changelog: v7.1...v7.2

Data Release v7.1

What's Changed

• Add new Gambia locations by @HarryHung in #88
• Add colour for Possible 6AI by @HarryHung in #89
• Add new manifestation by @HarryHung in #90
• Add new Australia region by @HarryHung in #91
• Implement stricter AST method checks by @HarryHung in #92
• Add Public_name from PRJNA857543 by @HarryHung in #93
• Bugfix: PCV introduced in the same year by @HarryHung in #94
• Remove trailing space by @HarryHung in #95

Full Changelog: v7.0...v7.1

Data Release v7.0

What's Changed

• Add new non-standard ages by @HarryHung in #80
• Add new Italy location by @HarryHung in #81
• Add new manifestation combination by @HarryHung in #82
• Add new AR locations by @HarryHung in #83
• Add new PK locations by @HarryHung in #84
• Update the Public names of PK AKU samples by @HarryHung in #85
• Update for Data Release v7.0 - Unified in silico processing by the GPS Pipeline by @HarryHung in #86
• Improve names of AMR validate functions; improve robustness of check_pbp_sir by @HarryHung in #87

Full Changelog: v6.3...v7.0

Data Release v6.3

What's Changed

• Ensure both Lane_id and Public_name are not empty in info.csv by @HarryHung in #79

Full Changelog: v6.2...v6.3

Data Release v6.2

What's Changed

• Add samples from Ndlangisa et al 2025 South Africa paper by @HarryHung in #66
• Add new Thailand location by @HarryHung in #67
• Add new serotype by @HarryHung in #68
• Add new manifestation by @HarryHung in #69
• Add several locations at country level by @HarryHung in #70
• Fix: enable integration of results without QC pass by @HarryHung in #71
• ERS column in GPS2 accepts BioSample accessions by @HarryHung in #72
• Accomodate new information in external studies by @HarryHung in #73
• Publish new external samples by @HarryHung in #74
• Remove SPE_ES2 samples that already exist as GPS samples by @HarryHung in #75
• Add new PK locations by @HarryHung in #76
• Add TN HBH Batch01 Samples by @HarryHung in #77
• Add Tunisia location at country level by @HarryHung in #78

Full Changelog: v6.1...v6.2

Data Release v6.1

What's Changed

• Fix description of Monocle table filtering by @HarryHung in #43
• Remove Duplicate column from Monocle table by @HarryHung in #44
• Add new Malaysia locations by @HarryHung in #45
• Add new manifestation combination by @HarryHung in #47
• Add publishable sample by @HarryHung in #46
• Add new Cambodia location by @HarryHung in #48
• Add publishable PK AKU samples by @HarryHung in #49
• Add colour codes for new GPSCs by @HarryHung in #50
• Fix line break to LF by @HarryHung in #51
• Add samples from Gladstone et al 2022 paper by @HarryHung in #52
• Add Finland and United Kingdom locations at country level by @HarryHung in #53
• Add new Colombia locations by @HarryHung in #54
• Add Cuba location at country level by @HarryHung in #55
• Add new Malaysia locations by @HarryHung in #56
• Add up-to-date PCV introduction year information by @HarryHung in #57
• Add new non-standard ages by @HarryHung in #58
• Improve warnings by @HarryHung in #59
• Add England, UK location by @HarryHung in #60
• Add new manifestations by @HarryHung in #61
• New Taiwan regional locations by @HarryHung in #62
• Add samples from Raymond et al 2025 Taiwan paper by @HarryHung in #63
• Add UKHSA samples by @HarryHung in #64
• Conceal Age_months and Age_days information from CDC data in Monocle table by @HarryHung in #65

Full Changelog: v6.0...v6.1

Data Release v6.0

Enable upload of private data to Monocle Data Viewer

What's Changed

• Add new Pakistan locations by @HarryHung in #38
• Monocle Table no longer include Sequence_Type by @HarryHung in #39
• Add new PK locations by @HarryHung in #40
• Adding publishable samples by @HarryHung in #41
• Adding support to allow Monocle share private data by @HarryHung in #42

Full Changelog: v5.1...v6.0

Data Release v5.1

What's Changed

• Add new locations by @HarryHung in #8
• Add Australia PCV information by @HarryHung in #9
• Prevent same Public Name being used in both GPS1 and GPS2 by @HarryHung in #10
• Add support for SRR/DRR & SRS/DRS by @HarryHung in #11
• Add new samples published in doi:10.1038/s41467-024-52459-3 by @HarryHung in #12
• Add new location by @HarryHung in #13
• Add crosscheck between QC and in silico by @HarryHung in #14
• Add new combination by @HarryHung in #15
• Add new locations by @HarryHung in #16
• Improve message when unique mark as duplicate by @HarryHung in #17
• Fix metadata insertion logic by @HarryHung in #18
• Remove defaults channel of Conda by @HarryHung in #19
• Remove defaults channel by @HarryHung in #20
• New GPS Pipeline Output Converter and Update of Processor with Auto-Assignment by @HarryHung in #21
• Adapt to GPS Pipeline update that output no GPSC assignment as NA by @HarryHung in #22
• Update get_vaccines_covered function for SeroBA v2 by @HarryHung in #23
• Add new locations in Brazil by @HarryHung in #24
• Public_name is added to table2 of GPS1 by @HarryHung in #25
• Add new Pakistan locations by @HarryHung in #26
• Add new Pakistan locations by @HarryHung in #27
• Add new Pakistan location by @HarryHung in #28
• Add new Colombia location by @HarryHung in #29
• Addition of Burkina Faso information by @HarryHung in #30
• Add new manifestation by @HarryHung in #31
• Add new Spain location by @HarryHung in #32
• Add new serotype colour by @HarryHung in #33
• Add new manifestation combination by @HarryHung in #34
• Add new location by @HarryHung in #35
• Improve handling of possible 6 serotype with warning by @HarryHung in #36
• Adapt to format change in table2 of GPS Data by @HarryHung in #37

Full Changelog: v5.0...v5.1