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1. Commits on Mar 4, 2019

   • Fixed match and hit proteins in search

     

     Luis Francisco Hernández Sánchez

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   • Redirected link to networks

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     Luis Francisco Hernández Sánchez

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2. Commits on Feb 28, 2019

   • Relocated figures and scripts.

     

     Luis Francisco Hernández Sánchez

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   • Added overall structure diagram.

     

     Luis Francisco Hernández Sánchez

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3. Commits on Feb 27, 2019

   • Added extractor structure figure

     

     Luis Francisco Hernández Sánchez

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   • Finished refactoring and added extra format convertion tool.

     

     Luis Francisco Hernández Sánchez

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   • Added example and test for insulin related signaling proteins.

     

     Luis Francisco Hernández Sánchez

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   • Added use case examples and reorganized documentation.

     

     Luis Francisco Hernández Sánchez

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   • Added static mapping figures for Extractor.

     

     Luis Francisco Hernández Sánchez

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4. Commits on Jan 22, 2019

   • Merge branch 'master' of https://github.com/PathwayAnalysisPlatform/PathwayMatcher into main_refactor

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     Luis Francisco Hernández Sánchez

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5. Commits on Dec 11, 2018

   • Updated the doc to the new version of the manuscript.

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6. Commits on Oct 16, 2018

   • Removed UTF BOM start character

     

     Luis Francisco Hernández Sánchez

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     Luis Francisco Hernández Sánchez

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   • Added arguments for the ProteoformFormatConverter class

     

     Luis Francisco Hernández Sánchez

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     Luis Francisco Hernández Sánchez

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   • Main refactor: setFunctions

     

     Luis Francisco Hernández Sánchez

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7. Commits on Oct 15, 2018

   • Refactored read input and create output files

     

     Luis Francisco Hernández Sánchez

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   • Fixed output directory creation

     

     Luis Francisco Hernández Sánchez

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8. Commits on Oct 12, 2018

   • Updated code style and cleanup part 2

     

     Luis Francisco Hernández Sánchez

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9. Commits on Oct 3, 2018

   • Updated pom version

     

     LuisFranciscoHS

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10. Commits on Sep 19, 2018

    • Added analysis for g1 & g2 of mm graph.

      

      Luis Francisco Hernández Sánchez

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11. Commits on Sep 14, 2018

    • Updated node percolation curves

      

      Luis Francisco Hernández Sánchez

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12. Commits on Sep 13, 2018

    • Updated node percolation plot

      

      Luis Francisco Hernández Sánchez

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    • Added node percolation sampling.

      

      Luis Francisco Hernández Sánchez

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    • Reorganized plots

      

      Luis Francisco Hernández Sánchez

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    • Plot the approximated percolation curve

      

      Luis Francisco Hernández Sánchez

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13. Commits on Sep 12, 2018

    • Improved plots with binned degree distributions

      

      Luis Francisco Hernández Sánchez

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14. Commits on Sep 11, 2018

    • Ignore big extracted files.

      

      Luis Francisco Hernández Sánchez

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      Luis Francisco Hernández Sánchez

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    • Updated network files to v65 and split p-p m-m and p-m

      

      Luis Francisco Hernández Sánchez

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    • Updated proteoform converter and lists from NEO4J to simple format.

      

      Luis Francisco Hernández Sánchez

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    • Updated complete list of proteins and proteioforms for v65 of Reactome.

      

      Luis Francisco Hernández Sánchez

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    • Added statistics for proteoforms with at least one modification.

      

      Luis Francisco Hernández Sánchez

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    • Added initial version of network construction guide.

      

      Luis Francisco Hernández Sánchez

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    • Added file with queries to get statistics on the Pathway network.

      

      Luis Francisco Hernández Sánchez

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    • Updated mapping files to Reactome v65

      

      Luis Francisco Hernández Sánchez

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15. Commits on Sep 10, 2018

    • Added degree distribution log-log plot

      

      Luis Francisco Hernández Sánchez

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16. Commits on Sep 7, 2018

    • Added write sampling of networks to csv

      

      Luis Francisco Hernández Sánchez

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      Luis Francisco Hernández Sánchez

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