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levitsky
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pyteomics
Pyteomics is a collection of lightweight and handy tools for Python that help to handle various sorts of proteomics data. Pyteomics provides a growing set of modules to facilitate the most common tasks in proteomics data analysis.
http://pyteomics.readthedocs.io
Apache License 2.0
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Improve and document modX terminal group support
#152
levitsky
opened
2 weeks ago
3
Support for Ion Mobility data from Bruker devices?
#151
LoponteHF
opened
1 month ago
5
question about how cvParams are read
#150
colin-combe
closed
2 months ago
2
question about ms2 reader
#149
colin-combe
closed
2 months ago
13
Add modification caching; Constant terminal mods for ProForma
#148
mobiusklein
closed
2 months ago
0
[proforma] Use cache on modification resolvers
#147
RalfG
closed
2 months ago
8
xpath in mzIdentML reader behaves differently from other xpath implementations?
#146
colin-combe
closed
2 months ago
3
question about memory use with mzIdentML reader
#145
colin-combe
opened
2 months ago
16
Adjust pickling
#144
mobiusklein
closed
3 months ago
0
[proforma] Modifications cannot be pickled after being resolved
#143
RalfG
closed
3 months ago
2
Rename _build_index to build_byte_index
#142
levitsky
closed
4 months ago
0
Fix for #136 is unreleased
#141
sjust-seerbio
closed
5 months ago
2
IndexSavingMixin._build_index() is never called by text parsers?
#140
levitsky
closed
4 months ago
4
Failing to parse UniProt description with space in gene symbol
#139
caetera
closed
5 months ago
2
Add a warning when an empty index is created, customize it for mgf
#138
levitsky
closed
4 months ago
1
Calculate m/z for proforma in calculate_mass
#137
levitsky
closed
6 months ago
4
New problem with parsing FASTA files
#136
tristanbrown
closed
6 months ago
3
Incorrect expasy rule
#135
Karl-Krauth
closed
6 months ago
1
MGF File Loading Error - IndexedMGF Object Empty
#134
CCranney
closed
6 months ago
3
Fix UniMod by ID
#133
mobiusklein
closed
7 months ago
2
[proforma] Unimod modificatons cannot be resolved by ID through psims
#132
RalfG
closed
7 months ago
0
Mass modification hashing
#130
mobiusklein
closed
8 months ago
1
If psims is available, use its Unimod because it caches and vendors
#129
mobiusklein
closed
8 months ago
3
Import of Unimod schema crashes when Unimod is down
#128
jonasscheid
closed
8 months ago
5
Deisotoping Methodology - future pyteomics implementation?
#127
CCranney
closed
9 months ago
2
Update imports for sqlalchemy v2.0 changes
#126
RalfG
closed
2 months ago
4
Fix levitsky/pyteomics#124
#125
sjust-seerbio
closed
9 months ago
0
AttributeError: module 'pyteomics.auxiliary' has no attribute 'PytemicsError'
#124
sjust-seerbio
closed
9 months ago
3
C-terminal modifications in calculate_mass
#123
JB91451
closed
9 months ago
2
MGF Writing error - `TypeError: 'numpy.int64' object is not iterable`
#122
CCranney
closed
9 months ago
3
Use metaclass to add __init__ to flavored fasta parsers
#121
levitsky
closed
9 months ago
0
Add raw fasta file header to parsers
#120
caetera
closed
9 months ago
7
Pandas is now a hard requirement
#119
mobiusklein
closed
10 months ago
3
Pandas Version Checking Fails
#118
jmmitc06
closed
10 months ago
3
Add optional quantile regression for get_RCs
#117
markmipt
closed
10 months ago
0
Load mzML file with ion mobility
#116
mobiotwin
closed
11 months ago
4
The issue of secondary spectrum
#115
morestart
closed
1 year ago
12
Polarity missing from mzMLb parser
#113
sorenwacker
closed
1 year ago
2
Error with version 4.6 when trying to open mzML or mzXML files.
#112
sorenwacker
closed
1 year ago
1
file_mode keyword only param to write mgf function breaks linters
#111
hechth
closed
1 year ago
2
Unable to use map() method in PepXML class
#110
freejstone
closed
1 year ago
2
unable to extract "charge array" with pyteomics.ms2.IndexedMS2
#108
irleader
closed
1 year ago
7
C-terminal modification parsing in ProForma
#107
caetera
closed
1 year ago
2
Fix iteration in example for calculating theoretical fragment m/z
#106
michabirklbauer
closed
1 year ago
1
Pass through the decode_binary parameter in read for mzml and mzxml
#105
mobiusklein
closed
1 year ago
1
[mzml] `decode_binary` argument documented but not implemented
#104
RalfG
closed
1 year ago
1
Hard-code UniRef keys, remove extra fields created by str.split()
#102
levitsky
closed
1 year ago
0
Address broader ProForma colon ambiguity
#101
mobiusklein
closed
1 year ago
0
Incorrect resolving of modification names with semicolon by UnimodModification
#100
caetera
closed
1 year ago
2
Fix issue #98 for colon-containing mods
#99
mobiusklein
closed
1 year ago
1
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