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Commits on Sep 9, 2024

• Update for more recent pybind11.

  dnbaker

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  c6395d1

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• Merge.

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  4569aae

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• Functionalize.

  dnbaker

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  9e80a1e

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Commits on Aug 13, 2024

• POA embed for input into GAT.

  dnbaker

  committed
  e773ffb

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• Missing include.

  dnbaker

  committed
  cc7e0c3

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• ExtractedPOAGraph, allows interface with pytorch.geometric.

  dnbaker

  committed
  48b4385

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• Translate U to T for parsed-in sequences.

  dnbaker

  committed
  3ae42e0

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• Standardize (U->T) and avoid segfault if MSA not yet built.

  dnbaker

  committed
  28ec790

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• Simple fastx parsing.

  dnbaker

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  372dea3

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• Remove debug.

  dnbaker

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  2a7f2a1

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• Correct binary data.

  dnbaker

  committed
  3a76446

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• Python to C++ running, some details aren't quite right.

  dnbaker

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  0b927db

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• Tweak bindings.

  dnbaker

  committed
  0f2527a

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• Add .matrix() function to SequenceGraph type.

  dnbaker

  committed
  a76c958

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• Complete matrix information extraction in C++. Next, unpacking in Python.

  dnbaker

  committed
  4e34841

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• Edge indptr: encodes which nodes are on which edges.

  dnbaker

  committed
  6f621c4

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• Add annotation of which nodes a given sequence aligned to.

  dnbaker

  committed
  24b1dbc

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• Add map from seq id to edges + nodes.

  dnbaker

  committed
  5af7085

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• Retain poa node order. Add in node ranks.

  dnbaker

  committed
  0c14b7a

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• Work on poa. Not ready for Python. Close?

  dnbaker

  committed
  fd67f1d

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• Skeleton for GraphRepr.

  dnbaker

  committed
  4696d18

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• Add min cov, add python binding.

  dnbaker

  committed
  29b81fc

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• Create poa graph from sequences. Next step: extract graph to Python.

  dnbaker

  committed
  4c91a2d

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• Add stub for poa.

  dnbaker

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  32d3dc3

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• Add submodule for spoa 4.1.0

  dnbaker

  committed
  1352833

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• Bump to 0.1.7.

  dnbaker

  committed
  9519e30

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Commits on Jul 25, 2024

• GAT

  XiaobingDean

  committed
  974dad5

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Commits on Jul 10, 2024

• ExtractedPOAGraph, allows interface with pytorch.geometric.

  dnbaker

  committed
  33ccff2

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Commits on Jul 5, 2024

• Translate U to T for parsed-in sequences.

  dnbaker

  committed
  668b210

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• Update files

  XiaobingDean

  committed
  45f53ed

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Commits on Jun 28, 2024

• Standardize (U->T) and avoid segfault if MSA not yet built.

  dnbaker

  committed
  97487f0

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• Simple fastx parsing.

  dnbaker

  committed
  b6369cd

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Commits on Jun 10, 2024

• Remove debug.

  dnbaker

  committed
  fbbba57

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• Correct binary data.

  dnbaker

  committed
  180b578

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• Python to C++ running, some details aren't quite right.

  dnbaker

  committed
  2d21b33

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