@michaelsteidel1 We don't use multispecies libraries to calculate entrapment or empirical FDR but same species libraries consisting of shuffled sequences as in https://t.co/IACbSgppxM. Our experiments show anticonservative FDR estimates for DIA-NN.
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@GeiszlerDaniel In our experience, it is better to use the same organism for entrapment experiments. We typically follow the entrapment strategy described in https://t.co/zJNxVcE88w, which generates entrapment databases by shuffling the target database at
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RT @PastelBio: Wow - this has to be one of the most liked and retweeted items from @PastelBio in a very long time - glad people are still i…
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RT @PastelBio: Fast and Accurate Protein False Discovery Rates on Large-Scale #Proteomics Data Sets with Percolator 3.0 | 2016 https://t.co…