pGlyco3.1

[2024-02-05] FIX pGlycoSite: site prob is always 1.
[2024-02-01] FIX pGlycoSite crashed.

pGlyco3.0_build20231220

Installers are recompiled by pyinstaller-6.0.0, so it may be not reported as malware by virus scanners (tested on several Windows machines).

Change logs:

[2024-02-05] FIX site prob==1 bug.

1. FIX pGlycoNovo bugs for XIC extraction.
2. Add TMTPro for TMT16plex/TMT18plex.
3. Use Advanced panel in GUI to control unusual parameters such as glycosylation_sites=JC
4. Use log pannel in GUI to monitor the console output
5. License is extended to 2027.

pGlyco3.0_build20210615

1. [FEATURE] 2+ c/z ions for 3+ or higher precursors are considered for SSGL (site-specific glycan localization) in pGlycoSite.
2. [FIX] Multi-site GDB bug fixed. This bug generates wired glycans in Multi-Site-O-Glycan.gdb before pGlyco3.0.rc3_build20210124.
3. [FEATURE] Generating joint Y ions for multiple glycans (trees) using the DFS algorithm (after pGlyco3.0.rc4_build20210327).
4. [FIX] "Check GDB" when SSGL sometimes does not check GDB (it depends on some conditions). Now we perform this before SSGL.
5. [FIX] Glycan encoding bug in pGlycoSite is fixed.
6. [FIX] Other minor bugs are fixed in identification and SSGL.
7. [FEATURE][Under Testing] 2*Fuc will be corrected as NeuAc if NeuAc-glycopeptide precursor signal is found in the MS1 spectrum and 274/292 ions were found in MS2. A column named "CorrectedGlycan(x,x,x,x)" is added in the result file. We are working on the better method for this correction.

pGlyco3.0.rc4_build20210327

Updates:

1. Bug fixed for paths with spaces;
2. With "pGlyco-N-Human-multi.gdb", two or more N-glycans could be localized using "good" ETxxD spectrum for a peptide with multiple candidate N-glycosylation sites;
3. "Multi-Site-O-Glycan.gdb" was updated;
4. "pGlycoSite: Localized Glycans Must Be in GDB" is set as default.

pGlyco3.0.rc3_build20210124

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