NEWS

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mspms 0.99

mspms 0.99.0

• Initial Bioconductor submission.

mspms 0.99.1

• Major edits to the structure of the package based on review. Now utilizes QFeatures objects and MSCoreutils to perform data processing steps.

mspms 0.99.2

• Removed logo from vignette to pass Bioconductor build. Fixed bugs to nterm_cleavages() and cterm_cleavages() that were causing problems when n_residue != 4. Simplified the logic behind these functions and added extensive testing to confirm that they work as expected with a range of peptide sequences. Minor change to the plot_volcano() function allowing the user to specify a padj threshold.

mspms 0.99.3

• Removed some redundant tests of the log2fc_t_test() function that took a long time to perform and were causing timeouts on the Bioconductor build.

mspms 0.99.4

• Removed the cathepsin B-D data from the internal datasets and from extdata/ . This keeps the example run time down, as well as greatly reduces the overall size of the package.

mspms 0.99.5

• Removed interactive heatmap from vignette to get rid of warning that vignette size was too large. Minor changes to vignette aesthetics.

mspms 0.99.6

• Improved vignette according to review feedback. Added peptide length calculation to row data.