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Commits on May 22, 2024

• Moved to a new repo, lh3/minisv

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Commits on May 18, 2024

• sync with the latest gafcall

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Commits on May 8, 2024

• sync with gafcall

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  ee69ad2

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Commits on May 3, 2024

• synx with gafcall.js r119

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  8b47809

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Commits on Apr 21, 2024

• Release minigraph-0.21 (r606)

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• r605: fixed wrong sample parsing

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  lh3

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• sync with gafcall

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Commits on Apr 17, 2024

• sync gafcall.js

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  committed
  efaadde

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• moved getsv/mergesv to a new script gafcall.js

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Commits on Apr 12, 2024

• fixed a typo

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Commits on Apr 11, 2024

• fixed two bugs

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  9ce47c9

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• set max count by length, not per read

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• reduce running time in the worst case

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  lh3

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Commits on Apr 9, 2024

• fixed two bugs

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  c9815f4

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• only output INDELs on one segment

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  lh3

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• code cleanup; prepare for more changes

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  ce80e09

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• output fake genotype

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Commits on Apr 7, 2024

• convert to VCF

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Commits on Apr 6, 2024

• for sv comparison, take DUP as INS

  lh3

  committed
  084935e

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• improved INS classification

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  3560d89

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• minor tweak

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• filter by cen_dist and count

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Commits on Apr 5, 2024

• merging apparently working

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• refactoring: separate polyA length estimate

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  committed
  b9c7225

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• fixed wrongly reversed tsd_seq and insert

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  committed
  6b1bd3d

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• code cleanup

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  committed
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• cen_dist for breakpoints

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• calculate distance to centromeres

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Commits on Apr 4, 2024

• added SVTYPE

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  e49b235

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• output sample name

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• added breakpoint parsing

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• refactor getindel; prepare for breakpoints

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Commits on Mar 11, 2024

• r578: a bit more inline comments in getindel

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• r577: make getindel work with SAM

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Commits on Dec 12, 2023

• r576: removed debugging code

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