Issues

• 4.1.6: final chunk fails with "failed loading target haplotypes" depending on target BGZF block layout

  statgen/Minimac4#91 · Filter by author mattbarton opened on Aug 20, 2026
  1

• Minimac4 “Exec format error” when reading MSAV converted from 1000G m3vcf.gz

  statgen/Minimac4#90 · Filter by author Benyapa-ins opened on Feb 19, 2026
  1

• MarkovModel Error

  statgen/Minimac4#89 · Filter by author Benyapa-ins opened on Jan 21, 2026
  1

• Imputation on CHM13

  statgen/Minimac4#88 · Filter by author aokulabasile opened on Dec 8, 2025
  2

• Non-model organism more than 23 chromosomes

  statgen/Minimac4#86 · Filter by author 197yu opened on Sep 17, 2025
  9

• Error: index file too big for skippable zstd frame Error: could not append S1R index

  statgen/Minimac4#85 · Filter by author Nixon-hk opened on Sep 2, 2025
  6

• TYPED output to show actual non-imputed genotype information / a QoL suggestion

  statgen/Minimac4#83 · Filter by author vidprijatelj opened on May 6, 2025
  3

• contig/chr name error

  statgen/Minimac4#82 · Filter by author WJunHao opened on Dec 25, 2024
  2

• Missing INFO.gz after imputation & Sample ploidy inconsistency error on chrX

  statgen/Minimac4#78 · Filter by author yiiruulin opened on Sep 21, 2024
  1

• record mismatch in temp files when -a option is active

  statgen/Minimac4#77 · Filter by author edg1983 opened on Jul 30, 2024
  7

• Error: failed loading target haplotypes

  statgen/Minimac4#76 · Filter by author TheRainInSpain opened on Jul 10, 2024
  5

• Inconsistent ploidy and segmentation fault when creating 1000GP chrX.PAR[1-2].msav

  statgen/Minimac4#74 · Filter by author youngchanpark opened on Jul 1, 2024
  1

• Specific information on HDS

  statgen/Minimac4#72 · Filter by author bgb-ipl opened on May 22, 2024
  2

• Non-adjacent blocks from --compress-reference

  statgen/Minimac4#69 · Filter by author andrew-slater opened on Apr 8, 2024
  3

• Error: I/O failed while merging

  statgen/Minimac4#68 · Filter by author lingjoyo opened on Feb 22, 2024
  8

• Map file

  statgen/Minimac4#67 · Filter by author shiva-g opened on Feb 15, 2024

• Reference Panel download

  statgen/Minimac4#66 · Filter by author Shrishtee-kandoi opened on Jan 23, 2024
  8

• Combined haplotypes can't be loaded

  statgen/Minimac4#65 · Filter by author rsteinfe1 opened on Nov 7, 2023
  3

• ERROR: Cannot execute binary file

  statgen/Minimac4#63 · Filter by author DavidGO464 opened on Aug 5, 2023
  3

• Multithreading during M3VCF/MSAV Generation?

  statgen/Minimac4#62 · Filter by author mragsac opened on Jul 28, 2023
  4

• The imputed genotypes is increased compared to the original vcf file

  statgen/Minimac4#59 · Filter by author liubh9 opened on Mar 4, 2023
  2

• Segmentation fault, and docs

  statgen/Minimac4#57 · Filter by author rlad opened on Feb 11, 2023
  34

• New minimac4 release v4.1.0 produces vcf.gz which can't be read by DosageConvertor

  statgen/Minimac4#53 · Filter by author sereeena opened on Oct 19, 2022
  14

• bash script to show an example of eagle2 + minimac4 for phasing and imputation?

  statgen/Minimac4#48 · Filter by author Shicheng-Guo opened on Feb 19, 2022

• Minimac4: commercial license for pharma company usage?

  statgen/Minimac4#47 · Filter by author Shicheng-Guo opened on Feb 18, 2022
  1