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Commits on Jan 28, 2025

• changed behaviour when N appears in reference

  genicos

  committed
  aa56668

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Commits on Dec 17, 2024

• added option to display time for each step

  genicos

  committed
  05daa8b

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• merge

  genicos

  committed
  b53876a

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• added option to only use tips as ref

  genicos

  committed
  39b84cb

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Commits on Dec 13, 2024

• simulate can now simulate leaf-node-only and sim-ref-reads

  AlanZhangUCSC

  committed
  fd0dfe5

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• clean node names

  AlanZhangUCSC

  committed
  9138569

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Commits on Dec 12, 2024

• minor

  AlanZhangUCSC

  committed
  511cbcc

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• assign reads

  AlanZhangUCSC

  committed
  6b17806

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Commits on Dec 9, 2024

• adding kminmer binary coverage options

  AlanZhangUCSC

  committed
  b21f974

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Commits on Dec 7, 2024

• kminmer binary coverage preem filter method

  AlanZhangUCSC

  committed
  8a20052

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Commits on Dec 5, 2024

• collapsing edges with 0 add/sub kminmers during preem filter method by unique highest read score

  AlanZhangUCSC

  committed
  3eaea51

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Commits on Dec 3, 2024

• adding filter method uhs

  AlanZhangUCSC

  committed
  f217ee0

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Commits on Nov 26, 2024

• fix

  AlanZhangUCSC

  committed
  30f2ae3

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Commits on Nov 25, 2024

• fix again

  

  AlanAlohaUCSC

  committed
  3935a51

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• unresolved merge

  

  AlanAlohaUCSC

  committed
  10de1b2

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• merging

  

  AlanAlohaUCSC

  committed
  a7679ef

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• add more error messages

  

  AlanAlohaUCSC

  committed
  26e1934

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• fix

  AlanZhangUCSC

  committed
  feb6b0b

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Commits on Nov 22, 2024

• up

  AlanZhangUCSC

  committed
  16dfc41

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Commits on Nov 20, 2024

• edit

  AlanZhangUCSC

  committed
  f239d06

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Commits on Nov 19, 2024

• edit

  AlanZhangUCSC

  committed
  df73066

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• Update README.md

  AlanZhangUCSC

  authored
  abed9cb

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• Update README.md

  AlanZhangUCSC

  authored
  f0f0f6b

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• up

  AlanZhangUCSC

  committed
  70fb11c

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• new figures

  AlanZhangUCSC

  committed
  eae681e

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• scale mutation spectrum in simulate

  AlanZhangUCSC

  committed
  d6e6fea

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• uncommenting newly implemented genotyper

  AlanZhangUCSC

  committed
  86e0e0d

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• up again

  AlanZhangUCSC

  committed
  7ca6eac

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• up

  AlanZhangUCSC

  committed
  9bfc2fc

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• up

  AlanZhangUCSC

  committed
  aaaed16

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• up

  AlanZhangUCSC

  committed
  13d484b

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Commits on Nov 14, 2024

• fixed simulate seed type

  genicos

  committed
  1a83a7b

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Commits on Nov 13, 2024

• fix ambiguous ref

  AlanZhangUCSC

  committed
  8a4f8be

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Commits on Nov 12, 2024

• account for the edge case when a node has empty genome

  AlanZhangUCSC

  committed
  5b8744b

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Commits on Nov 7, 2024

• fix read seedmers iorder

  AlanZhangUCSC

  committed
  9827b11

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