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Commits on Feb 21, 2024

• compiling implementation of strand-specific left alignment

  jeizenga

  committed
  165678a

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Commits on May 22, 2023

• Add scoring flags to vg giraffe

  adamnovak

  committed
  fd3ba7b

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Commits on Nov 3, 2022

• Add gap scoring function to header

  adamnovak

  committed
  04ccbf7

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Commits on Sep 23, 2022

• compiling implementation of all-reads mapq in mpmap

  jeizenga

  committed
  0578a2f

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Commits on Sep 10, 2021

• use aligner interface that scales scores

  jeizenga

  committed
  c7069f5

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Commits on Sep 4, 2021

• resolve merge conflict

  jeizenga

  committed
  e52d054

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Commits on Aug 12, 2021

• add algorithm to zip up tails in multipath alignments

  jeizenga

  committed
  762ea29

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Commits on Apr 1, 2021

• remove some vg functions

  jeizenga

  committed
  79a2aba

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Commits on Jan 5, 2021

• switch algs to copy moved to libhandlegraph

  jeizenga

  committed
  ddafc04

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Commits on Dec 26, 2020

• hook deletion aligner into banded global

  jeizenga

  committed
  7846638

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Commits on Oct 12, 2020

• update full len scoring in client code

  jeizenga

  committed
  cc903a9

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• hook up to qual adj dozeu interface

  jeizenga

  committed
  c5e4d93

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• move gssw functions into vg, add qual adj bonus

  jeizenga

  committed
  eaa0456

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Commits on Sep 25, 2020

• Add more documentation for score signedness

  adamnovak

  authored
  5aa0b89

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Commits on Sep 17, 2020

• fix unit tests for splicing

  jeizenga

  committed
  60bd7b4

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Commits on Sep 4, 2020

• compiling implementation of splice fusing algorithm

  jeizenga

  committed
  7a21ae1

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Commits on Sep 1, 2020

• make a splice-joined handle graph to align to

  jeizenga

  committed
  6e80735

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Commits on Aug 29, 2020

• add score to output of trimming function

  jeizenga

  committed
  55f9a7c

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Commits on Jul 7, 2020

• debug fanout walking, adjust cluster scores for fanotus

  jeizenga

  committed
  709f0ad

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Commits on May 5, 2020

• Simplify alignment to subgraph

  jltsiren

  committed
  e604a34

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Commits on May 4, 2020

• add option to prespecify topolgical order for dozeu

  jeizenga

  committed
  8667aaf

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Commits on May 1, 2020

• Align directly to a subgraph

  jltsiren

  committed
  58529e3

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Commits on Apr 25, 2020

• unittest and debug the pinning overlay

  jeizenga

  committed
  c8b7d34

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Commits on Apr 24, 2020

• make (untested) overlay to mask empty nodes for dozeu pinning

  jeizenga

  committed
  831fc14

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• update dozeu dep

  jeizenga

  committed
  7998b27

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Commits on Apr 23, 2020

• activate qual adj xdrop

  jeizenga

  committed
  f9be846

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Commits on Apr 22, 2020

• compiling qual/non-qual xdrop

  jeizenga

  committed
  64e5aba

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Commits on Apr 15, 2020

• make dozeu gap length configurable per alignment

  jeizenga

  committed
  b9adf82

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Commits on Apr 9, 2020

• make reused dozeu's that appear const, update aligner interface for xdrop

  jeizenga

  committed
  f9e215b

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Commits on Apr 8, 2020

• no more passing in orders to aligner

  jeizenga

  committed
  0f49450

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• push match/mismatch vs score matrix initializers into alignerclient

  jeizenga

  committed
  14627f9

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• import score matrices correctly in qual adj aligner

  jeizenga

  committed
  d0988f6

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Commits on Mar 25, 2020

• improve xdrop interface, eliminate proto handle graph

  jeizenga

  committed
  60f4012

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• threadsafe xdrop aligner

  jeizenga

  committed
  2d95770

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Commits on Mar 24, 2020

• documentation in aligners

  jeizenga

  committed
  bcc0eb6

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