GlyCombo v0.6.1

This is a minor revision to v0.6. Specific changes:

• Re-allow newline characters for the text input of GlyCombo (like enter or copying from Excel)
• Fixed crash when repeatedly opening and closing the custom window.

We are always happy to receive new feature requests either by email (chris@proteaglyco.com) or via the Issues page on the GlyCombo page (https://github.com/Protea-Glycosciences/GlyCombo/issues).

Glycombo v0.5

We have just released GlyCombo v0.5 which contains the following improvements over the last release:

• SIX new reducing end formats added including InstantPC, Rapifluor-MS, AA, 2-AB, Procainamide, and Girard's reagent P. If there is a format you would like but is missing, please let us know.
• New Acetylation modification and EIGHT new monosaccharides have been added (requested by Noortje), specifically addressing sialic acid linkage-specific derivatisations (e.g. lactonised, ethyl esterified, diethylamidated, and ammonia amidated)
• More graceful handling of uploading multiple mzML files, by generating a single upload window instead of one for each file (requested by Nick)
• Notification added if given mzML does not contain any MS2

We are always happy to receive new feature requests either by email (chris@proteaglyco.com) or via the Issues page on the GlyCombo page (https://github.com/Protea-Glycosciences/GlyCombo/issues).

Glycombo v0.4

We have just released GlyCombo v0.4 which contains the following improvements over the last release:

• Multiple mzML files can now be converted at once, bypassing the need to convert files one at a time
• New "File Name" column added to mzML output, to ensure users can track which files had which glycan composition identifications
• ClickOnce installer which is self-containing and automatically allows the software to be updated as new releases are released
• Progress bars for both mzML upload and combinatorial analysis (instead of the previous behaviour of a frozen interface)
• Fixed cause of crash during mzML selection

We have covered much of the existing feature requests made during initial beta testing so the release schedule will become infrequent. We are always happy to receive new feature requests either by email (chris@proteaglyco.com) or via the Issues page on the GlyCombo page (https://github.com/Protea-Glycosciences/GlyCombo/issues).

GlyCombo v0.2

Various improvements over the initial release (v0.1):

• Sciex data is now supported (specifically, glycan IDA data from the ZenoTOF 7600 has been tested and verified to be working)
• GlyCombo output is now more similar to GlycoMod {e.g. (dHex)1 instead of dHex(1)}
• Release file is now a single binary with no accompanying files
• If the mzML supports retention times and TIC intensity for MS2 scans, these metadata are now a new column in GlyCombo output
• Off-by-one errors can be mitigated by selecting the off-by-one checkbox.
  - These errors can be caused by instrument acquisition misassignment of the monoisotopic peak for glycans, leading to incorrect glycan composition assignments. By selecting this checkbox, it will append the list of identifications with an additional list of glycans if the monoisotopic assignment was off by one (e.g. M+1 instead of M).

GlyCombo v0.1

Initial release of GlyCombo, as described in our preprint and submitted manuscript.