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SysBioChalmers
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GECKO
Toolbox for including enzyme constraints on a genome-scale model.
http://sysbiochalmers.github.io/GECKO/
MIT License
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fix: correct update prot pool
#276
ae-tafur
closed
1 year ago
7
GECKO 3.0.1
#275
edkerk
closed
1 year ago
2
Revert "chore: remove old files"
#274
edkerk
closed
1 year ago
1
feat: stop if not limiting proteins were found
#273
ae-tafur
closed
1 year ago
8
fix: getECfromDatabase incorrect input definition
#272
edkerk
closed
1 year ago
1
doc: PR and Issues templates + contributing guidelines
#271
edkerk
closed
1 year ago
4
feat: GECKOInstaller checks for latest release
#270
edkerk
closed
12 months ago
0
convert the manual tests to run with GH actions
#269
mihai-sysbio
opened
1 year ago
0
feat: more readme improvements
#268
mihai-sysbio
closed
1 year ago
4
Bug: incorrect definition of input
#267
ae-tafur
closed
1 year ago
0
chore: remove old files and update readme
#266
edkerk
closed
1 year ago
1
update readme
#265
edkerk
closed
1 year ago
1
doc: README for GECKO root and databases
#264
edkerk
closed
1 year ago
1
Swap protein usage
#263
ae-tafur
closed
1 year ago
3
Bug detected in applyComplexData (line 77)
#262
Yu-sysbio
closed
1 year ago
5
feat/fix: getStandardKcat in model without subSystems - other minor bugs
#261
ae-tafur
closed
1 year ago
2
refactor: replace pptx with svg
#260
mihai-sysbio
closed
1 year ago
1
chore: remove geckopy
#259
edkerk
closed
1 year ago
2
feat: getStandardKcat in model without subSystems
#258
edkerk
closed
1 year ago
5
fix: findMetSmiles warning if many API queries fail
#257
edkerk
closed
1 year ago
3
fix: check for customkcats file resolves #255
#256
mihai-sysbio
closed
1 year ago
1
no error reported when customKcats file is missing
#255
mihai-sysbio
closed
1 year ago
1
Fix: constraint flux exchange of a specific condition
#254
ae-tafur
closed
1 year ago
1
Fix: error calculating the match percentage
#253
ae-tafur
closed
1 year ago
1
fix: loadDatabases KEGG download + alternative uniprot ID source
#252
edkerk
closed
1 year ago
5
feat: improve dlkcat docker
#251
mihai-sysbio
closed
1 year ago
23
Bug: Filter proteomics only return one column, despite there are 3 conditions
#250
ae-tafur
closed
1 year ago
2
bug for applyComplexData for rat-GEM
#249
feiranl
closed
1 year ago
2
feat: universal DLKcat.tsv for both light and full ecModels
#248
Yu-sysbio
opened
1 year ago
8
fix: protocol updates
#247
mihai-sysbio
closed
1 year ago
8
Bug detected using getECfromGEM
#246
Yu-sysbio
closed
1 year ago
7
feat: simulations
#245
edkerk
closed
1 year ago
1
feat: findMetSmiles intermediate output
#244
edkerk
closed
1 year ago
0
chore: clean up stale branches
#243
mihai-sysbio
closed
1 year ago
5
help: Uniprot does not contain same gene annotation as model
#242
Yu-sysbio
closed
1 year ago
6
makeEcModel/loadDatabase does not inform if UniProt file already exists
#241
Yu-sysbio
closed
1 year ago
3
fix-more user-friendly for function output
#240
feiranl
closed
1 year ago
1
Bug detected in findMetSmiles for reconstructing E. coli ecModel
#239
Yu-sysbio
closed
1 year ago
7
use of `getSpontaneousReactions`
#238
mihai-sysbio
closed
1 year ago
1
Feat: add standard kcats in light version
#237
ae-tafur
closed
1 year ago
0
protocol.m should be updated to fit the latest code changes
#236
ae-tafur
closed
1 year ago
2
Outdated output files
#235
ae-tafur
closed
1 year ago
0
doc: instructions for manual download
#234
Yu-sysbio
closed
1 year ago
3
bug in getComplexData.m
#233
feiranl
closed
1 year ago
0
feat: getStandardKcat should replace zeros in model.ec.kcat
#232
edkerk
closed
1 year ago
1
bug: makeEcModel if cytosol is not 'c'
#231
edkerk
closed
1 year ago
5
feat: proteomics integration protocol
#230
edkerk
closed
1 year ago
2
chore: consistent names and terminology
#229
edkerk
opened
1 year ago
1
chore: merge GECKO2 development into GECKO2
#228
mihai-sysbio
closed
1 year ago
2
branch changes for GECKO3
#227
mihai-sysbio
closed
1 year ago
1
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