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John Yang c76bb601f8
 Add beginner guide to Git remotes, HTTPS push and GPG key verification 
docs/10: adding the med129 remote, pushing with an access token,
diagnosing the SSH port 222 failure, adding and verifying the GPG key
on Forgejo, and the pitfalls hit along the way. Indexed in docs/00.

Co-Authored-By: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-03 22:36:40 +08:00
bloodagent_NA19238 Add ABO O.01.24 chimera analysis, long-read validation and short-report drafts 2026-11-03 11:21:41 +08:00
bloodtyper Add ABO O.01.24 chimera analysis, long-read validation and short-report drafts 2026-11-03 11:21:41 +08:00
docs Add beginner guide to Git remotes, HTTPS push and GPG key verification 2026-11-03 22:36:40 +08:00
lr_chimera Add supplementary material v0.1 for the ABO Brief Report 2026-11-03 21:57:48 +08:00
manuscript_abo Add supplementary material v0.1 for the ABO Brief Report 2026-11-03 21:57:48 +08:00
rbceq_NA19239 Add ABO O.01.24 chimera analysis, long-read validation and short-report drafts 2026-11-03 11:21:41 +08:00
.gitignore Revise novelty boundaries after reading full-text literature 2026-11-03 14:27:04 +08:00
1kgp_3202.ped Add ABO O.01.24 chimera analysis, long-read validation and short-report drafts 2026-11-03 11:21:41 +08:00
1kgp_panel.tsv Add ABO O.01.24 chimera analysis, long-read validation and short-report drafts 2026-11-03 11:21:41 +08:00
abo_bloodtyper.py Add ABO O.01.24 chimera analysis, long-read validation and short-report drafts 2026-11-03 11:21:41 +08:00
abo_bloodtyper_README.md Add ABO O.01.24 chimera analysis, long-read validation and short-report drafts 2026-11-03 11:21:41 +08:00
abo_region.chr9.vcf.gz Add ABO O.01.24 chimera analysis, long-read validation and short-report drafts 2026-11-03 11:21:41 +08:00
abo_region_ref.txt Add ABO O.01.24 chimera analysis, long-read validation and short-report drafts 2026-11-03 11:21:41 +08:00
abo_results_1000g.csv Add ABO O.01.24 chimera analysis, long-read validation and short-report drafts 2026-11-03 11:21:41 +08:00
bgzf_tbx.py Add ABO O.01.24 chimera analysis, long-read validation and short-report drafts 2026-11-03 11:21:41 +08:00
bloodtyper-analysis.md Add ABO O.01.24 chimera analysis, long-read validation and short-report drafts 2026-11-03 11:21:41 +08:00
external_paths.json Add ABO O.01.24 chimera analysis, long-read validation and short-report drafts 2026-11-03 11:21:41 +08:00
make_backup.py Add ABO O.01.24 chimera analysis, long-read validation and short-report drafts 2026-11-03 11:21:41 +08:00
MANIFEST.tsv Add ABO O.01.24 chimera analysis, long-read validation and short-report drafts 2026-11-03 11:21:41 +08:00
RESTORE.md Add ABO O.01.24 chimera analysis, long-read validation and short-report drafts 2026-11-03 11:21:41 +08:00
run_full.log Add ABO O.01.24 chimera analysis, long-read validation and short-report drafts 2026-11-03 11:21:41 +08:00
setup_paths.py Add ABO O.01.24 chimera analysis, long-read validation and short-report drafts 2026-11-03 11:21:41 +08:00
stage2_analysis_report.md Add ABO O.01.24 chimera analysis, long-read validation and short-report drafts 2026-11-03 11:21:41 +08:00
test_bgzf_tbx.py Add ABO O.01.24 chimera analysis, long-read validation and short-report drafts 2026-11-03 11:21:41 +08:00

docs/README.md

bloodtyper 文档体系

8 篇文档，按"总览 → 成果 → 学习(初/进/专) → 踩坑 → 决策 → 规划"组织。

# 文档 适合谁 内容
00 总览与索引 所有人 一分钟版成果、阅读路径、数据资产、三条铁律
01 成果汇总 所有人 科学结论、代码/数据/文档资产清单
02 学习指南·入门篇 初学者 ABO 生物学、3-SNP 判型法与陷阱、跑通 3202 人分析、HWE
03 学习指南·进阶篇 进阶者 BGZF/TBI 二进制精讲、phased VCF、单倍型重建、群体距离校准、IBD 扫描
04 bloodAGENT 使用与移植 专家 MinGW/htslib 移植全过程、运行参数、ISBT 表结构、结果解读、问题修复
05 踩坑记录 所有人 T-01~T-17：现象→定位→根因→修复→预防
06 决策过程与心得 研究者 D-01~D-09 决策日志、三层证据模型、校准先于判断
07 下一步任务规划 协作者 P0~P2 优先级任务、暂不做清单、路线图

深层分析报告（数据级）在上级目录：

  • ../bloodagent_NA19238/ABO_full_length_analysis.md（NA19238 全长）
  • ../bloodagent_NA19238/ABO_pedigree_analysis.md（三代家系）
  • ../stage2_analysis_report.md（三平台交叉验证）