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Draft ProForma implementation #37

Merged
merged 33 commits into from
Jun 28, 2021
Merged

Draft ProForma implementation #37

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c98feca
experimenting
mobiusklein Dec 12, 2020
7213b5e
Merge branch 'master' of https://github.com/levitsky/pyteomics into f…
mobiusklein Dec 13, 2020
c79c3e8
A draft parser for ProForma without any semantics on the returned object
mobiusklein Dec 20, 2020
8c5301e
Updates to the notebook
mobiusklein Dec 20, 2020
2dbe1c8
Add cv resolver
mobiusklein Dec 31, 2020
0b79ccc
Clean up markers
mobiusklein Jan 7, 2021
d069380
More proforma parsing experiments
mobiusklein Jan 14, 2021
5d7ec19
Merge branch 'master' of https://github.com/mobiusklein/pyteomics int…
mobiusklein Jan 18, 2021
ed2cacf
Fix out-of-order monosaccharide formulae;Add support for the Obs tag;…
mobiusklein Jan 19, 2021
df04d0f
Merge branch 'master' of https://github.com/levitsky/pyteomics into f…
mobiusklein Mar 20, 2021
66cdcf9
Merge branch 'master' of https://github.com/levitsky/pyteomics into f…
mobiusklein Mar 23, 2021
527b820
Add multimod example
mobiusklein Mar 23, 2021
4afde59
Prepping for draft PR
mobiusklein Mar 29, 2021
9039b28
Merge branch 'master' of https://github.com/levitsky/pyteomics into f…
mobiusklein May 21, 2021
34d36db
Add support for multiple tags per position, add tests, and fix some l…
mobiusklein May 24, 2021
35b4658
No f-strings
mobiusklein May 24, 2021
feda7d0
Use explicit super
mobiusklein May 24, 2021
8be8fc5
Add unknown amino acid
mobiusklein May 24, 2021
5508775
Fix terminal masses
mobiusklein May 27, 2021
7caff0a
update test
mobiusklein May 27, 2021
2b9402b
Fully support all the required additional amino acids
mobiusklein May 31, 2021
5f5166e
Remove duplicated undehydrated selenocysteine mass
mobiusklein May 31, 2021
5937299
Properly handle nested braces and isotopes
mobiusklein May 31, 2021
53c330a
Update pyteomics/proforma.py
mobiusklein May 31, 2021
e77ca1a
Update pyteomics/proforma.py
mobiusklein May 31, 2021
25fde39
Add compliance level to documentation
mobiusklein May 31, 2021
da164db
Fix up glycan mass calculation
mobiusklein Jun 3, 2021
8031207
Fix slice behavior
mobiusklein Jun 3, 2021
293b050
Simplify, more documentation
mobiusklein Jun 7, 2021
29251d8
Merge branch 'master' of https://github.com/levitsky/pyteomics into f…
mobiusklein Jun 13, 2021
325088d
Add ambiguous sequence regions
mobiusklein Jun 13, 2021
c544765
ProForma testing requires psims
mobiusklein Jun 13, 2021
43fcebe
ci
mobiusklein Jun 13, 2021
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1 change: 1 addition & 0 deletions .gitignore
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Expand Up @@ -4,4 +4,5 @@ __pycache__
*.egg-info
*.pyc
.ipynb_checkpoints
.vscode
*.diff
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