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Commits on Nov 22, 2021

• another docs update

  mikolmogorov

  committed
  b5b74ea

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• hapdup reference

  mikolmogorov

  committed
  ef4df4f

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Commits on Sep 21, 2021

• Merge branch 'flye-devel' into flye

  mikolmogorov

  committed
  af269a3

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• some slight changes how polished coverage is comuted

  mikolmogorov

  committed
  7356df9

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• disable uncircularizatin of haplotype paths for now

  mikolmogorov

  committed
  82cd1d2

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Commits on Sep 18, 2021

• some parameter tweaks for selecting uniform alignments

  mikolmogorov

  committed
  8f382fb

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• fix in computing coverage for contigs with a lot of secondary alignments

  mikolmogorov

  committed
  1bdaad9

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Commits on Sep 15, 2021

• Fix release date for version 2.9 (mikolmogorov#426)

  RaverJay

  authored
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Commits on Sep 10, 2021

• bam index in 4 threads

  mikolmogorov

  committed
  b25c8e5

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• speed up superbubble processing of very tangled components

  mikolmogorov

  committed
  7f7d8f3

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Commits on Sep 5, 2021

• specifically mention guppy5 supper accuracy

  mikolmogorov

  committed
  9c975dd

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Commits on Aug 21, 2021

• mm 2.18

  mikolmogorov

  committed
  987726d

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• Update README.md

  mikolmogorov

  authored
  d84d7a0

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• typos

  mikolmogorov

  committed
  f6ec19e

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• zenodo links

  mikolmogorov

  committed
  c6d3d2e

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• benchmarks updated

  mikolmogorov

  committed
  64cf9c7

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• FAQ update

  mikolmogorov

  committed
  8421870

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Commits on Aug 20, 2021

• typos + update

  mikolmogorov

  committed
  9d84aef

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• version 2.9 + docs update

  mikolmogorov

  committed
  6645b6b

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• new ONT HQ mode

  mikolmogorov

  committed
  70c3731

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Commits on Aug 8, 2021

• option to output gfa before rr

  mikolmogorov

  committed
  2ce3001

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• some logging improvements

  mikolmogorov

  committed
  5bd2150

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Commits on Aug 7, 2021

• deprecation warnings

  mikolmogorov

  committed
  f7d5b12

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• samtools output file through argument, fixes mikolmogorov#400

  mikolmogorov

  committed
  55409db

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Commits on Aug 5, 2021

• another small threshold update for repeat consistency check

  mikolmogorov

  committed
  87f28fd

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Commits on Aug 4, 2021

• updated in structural repeat checker: fixed more human MAs

  mikolmogorov

  committed
  7e27b21

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Commits on Aug 1, 2021

• improvement in repeat consistency check

  mikolmogorov

  committed
  9539a67

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Commits on Jul 30, 2021

• old code removed + logging improved

  mikolmogorov

  committed
  6b84e05

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• a new repeat detection function to evaluate read path consisteny through repeats

  mikolmogorov

  committed
  c5d1052

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• named constant

  mikolmogorov

  committed
  ca176a4

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Commits on Jul 28, 2021

• removed old code + logging cleanup

  mikolmogorov

  committed
  ee782a3

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Commits on Jul 27, 2021

• typos

  mikolmogorov

  committed
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Commits on Jul 24, 2021

• hifi default to 0.001, 10k limit for metagenomes

  mikolmogorov

  committed
  a98898f

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Commits on Jul 14, 2021

• readling alignments faster in gfa polishing

  mikolmogorov

  committed
  15ad29e

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Commits on Jul 9, 2021

• removed old commented-out code and unused kmer_sample parameter

  mikolmogorov

  committed
  e181aa6

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