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Commits on Jun 14, 2023

• Use min of 100 again for normalization window space

  davmlaw

  committed
  ef00572

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Commits on Jun 1, 2023

• bump version

  davmlaw

  authored
  8b30efd

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Commits on May 25, 2023

• counsyl#57 - c. dup converted back to delins

  davmlaw

  committed
  7591c13

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Commits on Apr 12, 2023

• Bump version

  davmlaw

  committed
  116217d

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• Support for coord range + equals ie "NC_000010.10:g.89623915_89623920="

  davmlaw

  committed
  715c4f2

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Commits on Aug 18, 2022

• Generating transcripts is now handled via https://github.com/SACGF/cdot

  davmlaw

  committed
  de3a1d3

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Commits on Aug 1, 2022

• Fix issue where dups always matched ref allele

  davmlaw

  committed
  992c4af

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Commits on Jan 17, 2022

• Fix syntax error

  davmlaw

  committed
  936d276

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Commits on Jan 14, 2022

• Including coding start/end transcript coords if available

  davmlaw

  committed
  eef2514

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• No need to sort before storing as we don't rely on order and re-sort when loading in utils

  davmlaw

  committed
  d59d079

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• Changelog

  davmlaw

  committed
  f42bd06

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• Use same code for calculating transcript position of start/stop codons. Be able to pass in pre-calculated values to save calculation if available

  davmlaw

  committed
  1ea73ad

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Commits on Dec 9, 2021

• Bump version, add changelog

  davmlaw

  committed
  70565eb

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• HGVS issue counsyl#61 - Reference HGVS without reference base leads to wrong coordinates and reference allele as it treats last digit as ref digit multiplying N that many times

  davmlaw

  committed
  12924f0

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Commits on Nov 24, 2021

• Bump version so I can track it

  davmlaw

  committed
  a0a8edd

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Commits on Nov 16, 2021

• Support mitochondria

  davmlaw

  committed
  27535c3

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• Validate coordinate span and reference are the same, as eg c.1727_1740dup14 should pass but c.1727_1740dup9999 should fail

  davmlaw

  committed
  9ceb649

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• Use ref for alt on any reference HGVS

  davmlaw

  committed
  1409aba

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Commits on Nov 15, 2021

• Support LRG transcripts (was setting as gene not transcripts if no gene provided)

  davmlaw

  committed
  dbc621f

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Commits on Nov 10, 2021

• Make sure exons are sorted correctly

  davmlaw

  committed
  bb17f43

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• Previous change didn't work on negative strand

  davmlaw

  committed
  b4571a7

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• Simplify and make consistent

  davmlaw

  committed
  2ca3e08

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• Use transcript offsets rather than exon lengths so we handle gaps properly

  davmlaw

  committed
  6c5e381

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Commits on Oct 28, 2021

• For non-coding, PyHGVS has cds_start = end not start (so coding length = 0)

  davmlaw

  committed
  1337350

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Commits on Oct 27, 2021

• Keep track of what other contigs we have coordinates for (eg chrX and chrY)

  davmlaw

  committed
  2e71ba9

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Commits on Oct 22, 2021

• Data generation scripts

  davmlaw

  committed
  cc3de4d

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• Better error message

  davmlaw

  committed
  4271aa7

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Commits on Oct 18, 2021

• Make sure to include models in package

  davmlaw

  committed
  2dbd69d

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Commits on Oct 15, 2021

• Always use cDNA as exons, to handle those strange cases like eg NM_001135649.3

  davmlaw

  committed
  d58789b

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• Don't die in gaps when going the other way. Change testing data

  davmlaw

  committed
  2145f96

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• Keep module interface the same

  davmlaw

  committed
  79fa49b

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• Better errors, note about not using single=True

  davmlaw

  committed
  0d6ddd5

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• Keep module interface the same

  davmlaw

  committed
  dc6d638

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Commits on Oct 14, 2021

• linting

  davmlaw

  committed
  c1f2099

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• Finish off gap handling code

  davmlaw

  committed
  5667511

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