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Hours: 22.00

Date User Activity Issue Comment Hours
09/18/2019 Thys Potgieter Analysis Feature #93: Improve normalization and imputaiton of tissue sample proteomics data and visualization different normalization and imputation techniques tested - Median, Quantile, and None compared. Slides generated. Median better than Quantile, KNN appears better than BPCA for gene set enrichment but not protein differential abundance 4.00 Actions
08/08/2019 Thys Potgieter Development Feature #93: Improve normalization and imputaiton of tissue sample proteomics data and visualization Contaminant versus total protein content visualization figure (Added to QC component of pipeline) 2.00 Actions
08/05/2019 Thys Potgieter Analysis Feature #93: Improve normalization and imputaiton of tissue sample proteomics data and visualization Runs for cells and tissues completed, QC figures added to meeting presentation, output moved to research drive. 3.00 Actions
08/05/2019 Thys Potgieter Development Feature #93: Improve normalization and imputaiton of tissue sample proteomics data and visualization Gene and protein ID added to differential abundance analysis output, unit tests. 3.00 Actions
07/25/2019 Thys Potgieter Development Feature #93: Improve normalization and imputaiton of tissue sample proteomics data and visualization Exclude samples from downstream analysis using config file 2.00 Actions
07/23/2019 Thys Potgieter Development Feature #93: Improve normalization and imputaiton of tissue sample proteomics data and visualization Boxplots for peptide identifications, scatterplots of sample protein intensities against median (QC). 4.00 Actions
07/19/2019 Thys Potgieter Development Feature #93: Improve normalization and imputaiton of tissue sample proteomics data and visualization Bayes PCA tested, configurable normalization method in pipeline. Box plots improved to exclude outliers in plots 4.00 Actions
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