This is the development version of Pirat; for the stable release version, see Pirat.
Precursor or Peptide Imputation under Random TruncationBioconductor version: Development (3.22)
Pirat enables the imputation of missing values (either MNARs or MCARs) in bottom-up LC-MS/MS proteomics data using a penalized maximum likelihood strategy. It does not require any parameter tuning, it models the instrument censorship from the data available. It accounts for sibling peptides correlations and it can leverage complementary transcriptomics measurements.
Author: Lucas Etourneau [aut], Laura Fancello [aut], Samuel Wieczorek [cre, aut] ORCID: 0000-0002-5016-1203 , Nelle Varoquaux [aut], Thomas Burger [aut]
Maintainer: Samuel Wieczorek <samuel.wieczorek at cea.fr>
Citation (from within R, entercitation("Pirat")): Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("Pirat")
For older versions of R, please refer to the appropriate Bioconductor release.
DocumentationTo view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("Pirat")Follow Installation instructions to use this package in your R session.
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