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mgleeming
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synthedia
Create synthetic DIA LC-MS/MS for proteomics experiments
https://synthedia.org
BSD 3-Clause "New" or "Revised" License
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Microbial communities
#43
rvaldes
opened
7 months ago
1
TIC and Peptide dynamic range
#42
im281
opened
1 year ago
0
scan time settings
#41
im281
closed
1 year ago
12
isotope modelling speed enhancements
#40
mgleeming
closed
1 year ago
0
write_empty_spectra crashes
#39
mgleeming
closed
1 year ago
0
add select_n option
#38
mgleeming
closed
1 year ago
0
.mzML file crashes in FragPipe DIA analysis
#37
johawahn
closed
1 year ago
3
"The specified MaxQuant msms.txt file does not exist"
#36
johawahn
closed
1 year ago
1
improve memory management for multi-sample simulations
#35
mgleeming
closed
1 year ago
0
improve worker handling
#34
mgleeming
closed
1 year ago
0
add version args
#33
mgleeming
closed
1 year ago
0
allow for a distribution of peak widths
#32
mgleeming
closed
1 year ago
0
add scan metadata
#31
mgleeming
closed
1 year ago
0
Simulate a 'test' MS peak to tune input parameters
#30
mgleeming
closed
1 year ago
0
Bump numpy from 1.21.5 to 1.22.0
#29
dependabot[bot]
closed
2 years ago
2
add option to write default params yaml file
#28
mgleeming
closed
2 years ago
0
add output label prefix to logging and pickle files
#27
mgleeming
closed
2 years ago
0
Add intensity distribution params for decoys
#26
mgleeming
closed
2 years ago
0
Add ms level accuracy params
#25
mgleeming
closed
2 years ago
0
decoy MSP error handling
#24
mgleeming
closed
2 years ago
0
retention time wobble
#23
mgleeming
closed
2 years ago
0
synthedia mzML file crashes on import to skyline
#22
mgleeming
closed
2 years ago
0
Improve handling in cases where given input file does not exist
#21
mgleeming
closed
2 years ago
0
pickle file input
#20
mgleeming
closed
2 years ago
0
peptide intensity model for prosit input
#19
mgleeming
closed
2 years ago
0
100 percent prob missing in group/sapmle fails test sporadically
#18
mgleeming
closed
2 years ago
0
multiprocessing for iso simulation
#17
mgleeming
closed
2 years ago
0
silence logging arg
#16
mgleeming
closed
2 years ago
0
intensity scale factor calculation performance
#15
mgleeming
closed
2 years ago
0
peptie subsetting performance
#14
mgleeming
closed
2 years ago
0
existing peptide file crashes
#13
mgleeming
closed
2 years ago
0
Refactor input reader
#12
mgleeming
closed
2 years ago
0
auto calculate clip windows
#11
mgleeming
closed
2 years ago
0
Add MS2 abundances to report
#10
mgleeming
closed
2 years ago
0
Expand test suite
#9
mgleeming
opened
2 years ago
0
peptide_table.tsv fields empty with centroiding
#8
mgleeming
closed
2 years ago
0
performance enhancements
#7
mgleeming
opened
2 years ago
0
differentially centroid MS1 and MS2
#6
mgleeming
closed
2 years ago
0
mzML files crash with maxquant 2.0.1.0
#5
mgleeming
opened
2 years ago
0
Additional abundance data
#4
mgleeming
closed
2 years ago
0
points per peak
#3
mgleeming
closed
2 years ago
0
MS2 spectra TOPPView error
#2
mgleeming
closed
2 years ago
0
empty MS2 spectra
#1
mgleeming
closed
2 years ago
1