WebNov 8, 2024 · DEqMS is developped on top of Limma. However, Limma assumes same prior variance for all genes. In proteomics, the accuracy of protein abundance estimates varies by the number of peptides/PSMs quantified in both label-free and labelled data. Proteins quantification by multiple peptides or PSMs are more accurate. DEqMS … WebMay 31, 2024 · DEqMS package is able to estimate different prior variances for proteins quantified by different number of PSMs/peptides, therefore achieving better accuracy. … DEqMS is a tool for quantitative proteomic analysis - Issues · yafeng/DEqMS DEqMS is a tool for quantitative proteomic analysis - Pull requests · yafeng/DEqMS GitHub is where people build software. More than 83 million people use GitHub …
Bioconductor - DEqMS
WebJun 3, 2024 · In yafeng/DEqMS: a tool to perform statistical analysis of differential protein expression for quantitative proteomics data. Description Usage Arguments Details Value Author(s) Examples. View source: R/DEqMS.R. Description. This function is to calculate peptide/PSM count adjusted t-statistics, p-values. Usage WebDEqMS takes this feature into account when assessing differential protein expression. This allows for a more accurate data-dependent estimation of protein variance and inclusion of single peptide identifications without increasing false discoveries. The method was tested in several data sets including E. coli proteome spike-in data, using both ... geography ricepots
medianSweeping: summarize peptide/PSM intensity into …
WebHere we present DEqMS, a robust statistical method developed specifically for differential protein expression analysis in mass spectrometry data. In all data sets investigated there … WebNov 8, 2024 · In DEqMS: a tool to perform statistical analysis of differential protein expression for quantitative proteomics data. Description Usage Arguments Value Author(s) Examples. View source: R/DEqMS.R. Description. This function is to calculate proteins'relative abundance by median sweeping method. Usage WebDEqMS package is able to estimate different prior variances for proteins quantified by different number of PSMs/peptides, therefore acchieving better accuracy. The package … geography rhyming words