Chunk #42 — Findings — Improvements in PLINK 1.9 — Other noteworthy algorithms — Haplotype block estimation

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Second-generation PLINK: rising to the challenge of larger and richer datasets.

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yes

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Most of these ideas are implemented in haploview_blocks_classify() and haploview_blocks() in plink_ld.c. The last two optimizations were previously implemented in Taliun’s “LDExplorer” R package [26].