The following functions have been or are being transferred elsewhere. MSnbase should ditch the local implementation and import the functions from external packages:
MsCoreUtils normalisation and imputation functions.
PSM::readPSMs() and PSM::calculateFragments() (in progress)
PSM::getAminoAcids() and PSM::getAtomicMass() (in progress)
The following functions have been or are being transferred elsewhere.
MSnbaseshould ditch the local implementation and import the functions from external packages:MsCoreUtilsnormalisation and imputation functions.PSM::readPSMs()andPSM::calculateFragments()(in progress)PSM::getAminoAcids()andPSM::getAtomicMass()(in progress)MsCoreUtils::formatRt()(see here)