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Commits on Dec 21, 2022

• Create LICENSE

  williamslab

  authored
  0c8f5a6

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Commits on Jul 1, 2020

• Feature: be more robust to errors within one hap trans regions:

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  committed
  794bc27

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• revert ca35a3c8: find one hap trans with two outlier children

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  committed
  de6a135

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Commits on Jun 17, 2020

• Print more of the parameter settings

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  committed
  13e9fe9

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• Feature: multi-SNP errors!

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  committed
  dda0824

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Commits on May 30, 2020

• only look for one hap trans with one outlier child

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  committed
  ca35a3c

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Commits on May 13, 2020

• use stl hash function

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  committed
  c6434a9

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Commits on May 7, 2020

• bump version

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  committed
  f962c62

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• BUGFIX: don't remove one hap trans penalty for ambig recomb

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  committed
  26bb3d1

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• BUGFIX: revert commit 'accaada'

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  committed
  e2e4d95

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Commits on Apr 15, 2020

• Feature: remove penalty after one hap trans when child later recombines

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  56e36cd

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Commits on Apr 8, 2020

• BUGFIX: shouldn't flip phase type of ambiguous states

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  committed
  accaada

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Commits on Apr 6, 2020

• bump version

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  committed
  9b5e5ae

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• BUGFIX: states that are heterozygous for a parent may not transmit both

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  committed
  0e16a19

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Commits on Apr 3, 2020

• 0.5 penalty (instead of 1) for recomb-based error

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  committed
  4f13c8a

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• BUGFIX: OK for ambig state to be old or new error

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  committed
  c8bd244

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• functions for debugging

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  committed
  979a0aa

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• commented out code for printing family meta data

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  committed
  96e4a0c

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• somewhat lower one haplotype transmission detection threshold (catch more)

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  committed
  b0d7a1c

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Commits on Jan 15, 2020

• Options useful for subsetting/testing: --min_par, --min_child, --set_miss_par

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  committed
  326bcb4

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Commits on Oct 1, 2019

• bump version number

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  committed
  70c6f45

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• BUGFIX: must initialize <theStateUpdated>

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  committed
  9024b24

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Commits on Sep 15, 2019

• bump version number

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  committed
  f73ffb4

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• BUGFIX: assertion out of sync; also ensure related variable is correct

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  committed
  b853726

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Commits on Sep 7, 2019

• BUGFIX: updated status has two values: separately check

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  committed
  f994347

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Commits on Jul 26, 2019

• Liberally assign one hap trans status at start/end of chrom

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  committed
  a1f9ec0

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Commits on Jul 25, 2019

• bump version number

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  committed
  2697fbd

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• bug fix: can only have one hap trans at states where the parent is

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  committed
  f79bed1

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• fix (cosmetic) typo in verbose output

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  committed
  2a59fb0

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Commits on Jul 24, 2019

• bug fix: indicate when lastAssignedIV assigned; ensure its initial value

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  committed
  4852e5e

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• Bug fix: lookupState() wasn't ignoring unassigned IV values when finding

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  committed
  0fcb724

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• lower one hap trans threshold default

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  committed
  d7e89c2

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Commits on Jul 4, 2019

• bump version number due to bug fix in genetio

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  committed
  089d629

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Commits on Apr 13, 2019

• Support for detecting when a PHASE_AMBIG site has homozygous parents

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  committed
  eccab03

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Commits on Apr 7, 2019

• Printing of children in JSON

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  committed
  81e460a

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