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@grst grst released this 05 Jun 05:59
v0.3
99644e8
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Learn about vigilant mode.
  • More extensive CI tests (now also testing on Windows, MacOS and testing the conda recipe) (#136, #138)
  • Add example images to API documentation (#140)
  • Refactor IO to expose TcrCell and TcrChain (#139)
  • Create data loading tutorial (#139)
  • Add a progressbar to TCR neighbors (#143)
  • Move clonotype_network_igraph to tools (#144)
  • Add read_airr to support the AIRR rearrangement format (#147)
  • Add option to take v-gene into account during clonotype definition (#148)
  • Store colors in AnnData to ensure consistent coloring across plots (#151)
  • Divide define_clontoypes into define_clonotypes and define_clonotype_clusters (#152). Now, the user has to specify explicitly sequence and metric for both tl.tcr_neighbors, tl.define_clonotype_clusters and tl.clonotype_network. This makes it more straightforward to have multiple, different versions of the clonotype network at the same time. The default parameters changed to sequence="nt" and `metric="identity" to comply with the traditional definition of clonotypes. The changes are also reflected in the glossary and the tutorial.
  • Update the workflow figure (#154)
  • Fix a bug that caused labels in the repertoire_overlap heatmap to be mixed up. (#157)
  • Add a label to the heatmap annotation in repertoire_overlap (#158).
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