protag
Search Tagged Peptides & Draw Highlighted Mass Spectra
Description
In a typical protein labelling procedure, proteins are chemically tagged with a functional group, usually at specific sites, then digested into peptides, which are then analyzed using matrix-assisted laser desorption ionization - time of flight mass spectrometry (MALDI-TOF MS) to generate peptide fingerprint. Relative to the control, peptides that are heavier by the mass of the labelling group are informative for sequence determination. Searching for peptides with such mass shifts, however, can be difficult. This package, designed to tackle this inconvenience, takes as input the mass list of two or multiple MALDI-TOF MS mass lists, and makes pairwise comparisons between the labeled groups vs. control, and restores centroid mass spectra with highlighted peaks of interest for easier visual examination. Particularly, peaks differentiated by the mass of the labelling group are defined as a “pair”, those with equal masses as a “match”, and all the other peaks as a “mismatch”.For more bioanalytical background information, refer to following publications: Jingjing Deng (2015) <doi:10.1007/978-1-4939-2550-6_19>; Elizabeth Chang (2016) <doi:10.7171/jbt.16-2702-002>.
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CRAN Check Status
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| Flavor | Status |
|---|---|
| r-devel-linux-x86_64-debian-clang | OK |
| r-devel-linux-x86_64-debian-gcc | OK |
| r-devel-linux-x86_64-fedora-clang | NOTE |
| r-devel-linux-x86_64-fedora-gcc | NOTE |
| r-devel-windows-x86_64 | OK |
| r-oldrel-macos-arm64 | OK |
| r-oldrel-macos-x86_64 | OK |
| r-oldrel-windows-x86_64 | OK |
| r-patched-linux-x86_64 | OK |
| r-release-linux-x86_64 | OK |
| r-release-macos-arm64 | OK |
| r-release-macos-x86_64 | OK |
| r-release-windows-x86_64 | OK |
Check details (2 non-OK)
dependencies in R code
Namespaces in Imports field not imported from: ‘RColorBrewer’ ‘grDevices’ All declared Imports should be used.
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Namespaces in Imports field not imported from: ‘RColorBrewer’ ‘grDevices’ All declared Imports should be used.
Check History
NOTE 11 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE May 12, 2026
dependencies in R code
Namespaces in Imports field not imported from: ‘RColorBrewer’ ‘grDevices’ All declared Imports should be used.
dependencies in R code
Namespaces in Imports field not imported from: ‘RColorBrewer’ ‘grDevices’ All declared Imports should be used.
WARNING 10 OK · 2 NOTE · 1 WARNING · 0 ERROR · 0 FAILURE May 11, 2026
PDF version of manual
LaTeX errors when creating PDF version. This typically indicates Rd problems. LaTeX errors found:
dependencies in R code
Namespaces in Imports field not imported from: ‘RColorBrewer’ ‘grDevices’ All declared Imports should be used.
dependencies in R code
Namespaces in Imports field not imported from: ‘RColorBrewer’ ‘grDevices’ All declared Imports should be used.
NOTE 12 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE Mar 10, 2026
dependencies in R code
Namespaces in Imports field not imported from: ‘RColorBrewer’ ‘grDevices’ All declared Imports should be used.
dependencies in R code
Namespaces in Imports field not imported from: ‘RColorBrewer’ ‘grDevices’ All declared Imports should be used.
Dependency Network
Version History
1 trackedR Observatory began tracking this package on Mar 10, 2026; it first appeared on CRAN Aug 9, 2019. Releases before tracking aren’t shown.