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Version 1.1.0 relased
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@bvieth bvieth released this 29 Mar 16:41
· 40 commits to master since this release
1.1.0
df4b965

Version 1.1.0 released with the following changes / additions:

  • simulation of batch effects (see options p.B, bLFC and bPattern in DESetup and simulateCounts)
  • simulation of spike-in expression (see estimateSpike , plotSpike and option spikeIns in simulateDE and simulateCounts)
  • simulation of multiple sample groups (e.g. single cell populations) with simulateCounts
  • imputation and prefiltering options prior to normalisation in DE power simulations added (scImpute, scone, Seurat, DrImpute, SAVER)
  • additional normalisation options and DE tools (esp. for single cells) included in simulateDE
  • evaluation of simulation setup using estimated versus true value comparisons of library size factors and log2 fold changes in evaluateSim and plotEvalSim
  • increased flexibility in preprocessing for distribution evaluation in evaluateDist
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