Pinned issues
Issues
- 7
Testing FragPipe 22.0 linux container version
#1600 opened by rolivella - 3
N-glyco DDA workflow and Skyline export
#1601 opened by mwfoster - 5
Without DDA data and spectral library, can we directly search for DIA data using only protein sequences in Fragpipe
#1572 opened by shenghao003 - 2
Crash for PSM = 0
#1590 opened by hupak2022 - 12
Error Reading PSM
#1593 opened by rabdo17 - 4
Error with ProteinProphet
#1598 opened by patmartinezb - 2
Diagnostic Ion mining crashed
#1599 opened by Dobrokhotov1989 - 2
How can I combine whole proteome data and phosphoproteome data for site occupancy and other further analysis?
#1594 opened by TeckYewLow - 1
Using DDA data from Waters
#1597 opened by orbitra - 3
- 8
Quantify unmatched peptide like features
#1553 opened by eldenrowland - 7
Discrepancies in charge state assignment and PTM detection when Reanalyzing data with Fragpipe
#1581 opened by Mathieu-Maessen - 1
- 0
- 2
the protein FDR filter didn't reach the desired threshold, try a higher threshold using the --prot parameter
#1591 opened by Luc2702 - 2
- 1
Non Canonical N-linked Glycosylation Motifs
#1588 opened by ABB-808 - 2
Wrong experiment/bioreplicate assignment
#1587 opened by realzhipeng - 4
Comparing a short BSA peptide intensity with Skyline
#1583 opened by rolivella - 3
Memory usage with large metaproteomics databases
#1575 opened by magnusarntzen - 9
Cannot execute program - RefreshParser.exe
#1579 opened by mryanshi - 1
When loading run raw data, show: Process 'DIA-NN' finished, exit code: -1073741819
#1582 opened by Jaclynch - 2
how to configure DIA-NN on Linux
#1584 opened by huizhu2020 - 1
How to fix python version N/A in Linux
#1585 opened by huizhu2020 - 4
Empty "Gene" and "Mapped Genes" columns in psm.tsv files
#1580 opened by RobAlbn - 3
- 1
[FragPipe]_the protein FDR filter didn't reach the desired threshold, try a higher threshold using the --prot parameter
#1578 opened by Luc2702 - 2
- 1
location of cache files
#1571 opened by doug-oneal-nih - 7
EasyPQP not installed
#1566 opened by JesseIL - 11
Let IonQuant support the "allow unlabeled"
#1573 opened by helloworld1631 - 5
IonQuant error
#1570 opened by liangxiao023 - 2
Discrepancy between intensity and MaxLFQ intensity identification numbers using nonspecific-HLA workflow with Quantification
#1569 opened by L3ft2di3 - 2
Contextual amino acid residues in peptides
#1568 opened by liangxiao023 - 4
MSFragger searches for diagnostic ion peaks
#1559 opened by liangxiao023 - 6
Percolator fails when reading libstdc++
#1561 opened by Tan-Jiahua - 8
- 3
Claims no experiment assigned and prevents MBR, though experiment is clearly assigned
#1563 opened by candidaorelmex - 3
- 3
- 3
Error when searching peptidomics data (not HLA)
#1562 opened by JesseIL - 2
- 7
proteinprophet returned non-zero
#1556 opened by HYCCHENG - 3
Corrupted FASTA file broke the program
#1555 opened by Cllozano - 1
java.lang.NullPointerException
#1551 opened by haowBio - 2
Found peptides are not matching protein sequences
#1558 opened by LifeWorks - 4
Java Out of Memory error
#1557 opened by edf4n - 14
PTMShepherd could not find mzData for run
#1554 opened by dfermin - 2
Using IonQuant directly without MSfragger
#1552 opened by aly1020 - 2
Process 'PhilosopherFilter' finished, exit code: 1
#1550 opened by RevathyNanda