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Changed the name of Methoxymalonyl-ACP which was erroneously named methoxymalonyl-CoA. This included wrong substrate in the synthesis reeaction (coa vs ACP), but it does not affect any predictions. That is because the coa/acp substrate is immediately released in the next reaction attaching methoxymalonyl-CoA to the polyketide chain.
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Jan 7, 2021
* Fix release tag * Update README.md Add release date tag * Correction of name and prediction of correlations (#2) * Add zenodo tag
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Jan 12, 2021
* Calculate correlation * Calculate correlations * bugfix: name of methoxymalonyl-ACP Changed the name of Methoxymalonyl-ACP which was erroneously named methoxymalonyl-CoA. This included wrong substrate in the synthesis reeaction (coa vs ACP), but it does not affect any predictions. That is because the coa/acp substrate is immediately released in the next reaction attaching methoxymalonyl-CoA to the polyketide chain. * Fix get_mibig Improve handling of exceptions in get_mibig.py and add lxml package to requirements.txt * Update README from master branch (#3) * Fix release tag * Update README.md Add release date tag * Correction of name and prediction of correlations (#2) * Add zenodo tag * Update README.md * Add BGC type analysis The jupyter notebook BGC_type_analysis.ipynb analyses the different type of NRPS/PKS clusters in the MIBiG dataset
sulheim
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May 4, 2021
* Calculate correlation * Calculate correlations * bugfix: name of methoxymalonyl-ACP Changed the name of Methoxymalonyl-ACP which was erroneously named methoxymalonyl-CoA. This included wrong substrate in the synthesis reeaction (coa vs ACP), but it does not affect any predictions. That is because the coa/acp substrate is immediately released in the next reaction attaching methoxymalonyl-CoA to the polyketide chain. * Fix get_mibig Improve handling of exceptions in get_mibig.py and add lxml package to requirements.txt * Update README from master branch (#3) * Fix release tag * Update README.md Add release date tag * Correction of name and prediction of correlations (#2) * Add zenodo tag * Update README.md * Add BGC type analysis The jupyter notebook BGC_type_analysis.ipynb analysis the different type of NRPS/PKS clusters in the MIBiG dataset * Add E. coli model * Add most recent version of Sco-GEM * Add option for adding pathways directly to model * Update README Add info about adding constructed pathways directly to a GEM
sulheim
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Sep 9, 2021
* Calculate correlation * Calculate correlations * bugfix: name of methoxymalonyl-ACP Changed the name of Methoxymalonyl-ACP which was erroneously named methoxymalonyl-CoA. This included wrong substrate in the synthesis reeaction (coa vs ACP), but it does not affect any predictions. That is because the coa/acp substrate is immediately released in the next reaction attaching methoxymalonyl-CoA to the polyketide chain. * Fix get_mibig Improve handling of exceptions in get_mibig.py and add lxml package to requirements.txt * Update README from master branch (#3) * Fix release tag * Update README.md Add release date tag * Correction of name and prediction of correlations (#2) * Add zenodo tag * Update README.md * Add BGC type analysis The jupyter notebook BGC_type_analysis.ipynb analysis the different type of NRPS/PKS clusters in the MIBiG dataset * Add E. coli model * Add most recent version of Sco-GEM * Add option for adding pathways directly to model * Update README Add info about adding constructed pathways directly to a GEM * Update README.md * Update README.md
sulheim
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Jan 8, 2023
Add a bunch of update to README and a few bugfixes that should have been added previously * Calculate correlation * Calculate correlations * bugfix: name of methoxymalonyl-ACP Changed the name of Methoxymalonyl-ACP which was erroneously named methoxymalonyl-CoA. This included wrong substrate in the synthesis reeaction (coa vs ACP), but it does not affect any predictions. That is because the coa/acp substrate is immediately released in the next reaction attaching methoxymalonyl-CoA to the polyketide chain. * Fix get_mibig Improve handling of exceptions in get_mibig.py and add lxml package to requirements.txt * Update README from master branch (#3) * Fix release tag * Update README.md Add release date tag * Correction of name and prediction of correlations (#2) * Add zenodo tag * Update README.md * Add BGC type analysis The jupyter notebook BGC_type_analysis.ipynb analysis the different type of NRPS/PKS clusters in the MIBiG dataset * Add E. coli model * Add most recent version of Sco-GEM * Add option for adding pathways directly to model * Update README Add info about adding constructed pathways directly to a GEM * Update README.md * Update README.md
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This PR provide two improvements:
This does not affect have any practical effect on predictions based on the reconstructed pathways.