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TitanCNA v1.7.1
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@gavinha gavinha released this 14 May 23:06
· 261 commits to master since this release
v1.7.1
a5bf4f3

TitanCNA version 1.7.1 changes (formerly v1.5.8)

Merged to master as v1.7.1 (a5bf4f3)
(Committed revisions 977c48a,5fe5acc.)

  1. Updated functions to align with dependent package updates.

    • Affected function: loadAlleleCounts, correctReadDepth
    • Adjusted function to accommodate GenomeInfoDb v1.1.3 -> v1.2.4
    • Usage of this function remains unchanged.

  2. Minor bug fix in function

    • Affected function: correctReadDepth
    • Issue with findOverlaps() usage fixed

  3. Bug fix

    • Affected function: outputTitanResults, plotClonalFrequency, plotSubcloneProfiles
    • Fixed bug when error is thrown trying to output results for genome that is predicted to be completely diploid HET.

  4. Modified internal functionality

    • Affected function: runEMclonalCN, viterbiClonalCN
    • The C code (src/fwd_backC_clonalCN.c & src/viterbiC_clonalCN.c) have been modified such that the transition probabilities between clonal clusters for HET (diploid) states are equal. This may help prevent situations when normal contamination is 0 for more than 1 clonal cluster solutions.
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