Thomas Naake

Dear Yupeng, in the manual (http://chibba.pgml.uga.edu/mcscan2/documentation/manual.pdf) you are stating that the user can specify if higher or lower values are preferred when using `MCScanX_h` ("When the third column is used,...

MsQuality

11

Update the following URL to point to the GitHub repository of the package you wish to submit to _Bioconductor_ - Repository: https://github.com/tnaake/MsQuality Confirm the following by editing each check box...

deprecated package in BioC 3.11 - PAPi

6

Hi, PAPi was identified as being non-maintained/unresponsive and will be deprecated in the next BioC release. PAPi is described in the section 2.7.4 Pathway analysis. I am wondering if we...

Calculation of quality metrics based on HUPO-PSI/mzQC definitions

8

Dear @jorainer following up on the conversation in the slack channel, here comes the issue in the `Spectra` package. The idea was to be able to calculate HUPO-PSI-defined quality metrics...

align/match peaks of two `Spectrum` objects

6

Besides the possibility to use `binning` to match spectra, another possibility to align/match peaks of two `Spectrum` objects could be the following using bipartitte networks: 1. start with a bipartite...