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Update theme1 branch and add visualization data #4

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Update theme1 branch and add visualization data #4

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Commits on Oct 19, 2019

  1. H3N2rooted

    @MarHayat
    MarHayat committed Oct 19, 2019
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  2. fixed bug in function in larger scale features

    @carolinecolijn
    carolinecolijn committed Oct 19, 2019
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  3. Add my scratchpad file

    @dfornika
    dfornika committed Oct 19, 2019
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  4. Fixed bug where list does not have a name for trees

    @qpmnguyen
    qpmnguyen committed Oct 19, 2019
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  5. Merge branch 'master' of https://github.com/hackseq/hs19-flu

    @qpmnguyen
    qpmnguyen committed Oct 19, 2019
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  6. Added graph neural networks approach

    @saraswatmanu
    saraswatmanu committed Oct 19, 2019
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  7. Update README.md

    @carolinecolijn
    carolinecolijn committed Oct 19, 2019
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  8. Update my scratchpad

    @dfornika
    dfornika committed Oct 19, 2019
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  9. Update my scratchpad

    @dfornika
    dfornika committed Oct 19, 2019
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  10. adding R notes for using and plotting functions for clades through time

    @carolinecolijn
    carolinecolijn committed Oct 19, 2019
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  11. fix in gen dist

    @carolinecolijn
    carolinecolijn committed Oct 19, 2019
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  12. fix in gen dist

    @carolinecolijn
    carolinecolijn committed Oct 19, 2019
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  13. fix in gen dist

    @carolinecolijn
    carolinecolijn committed Oct 19, 2019
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  14. fix in gen dist

    @carolinecolijn
    carolinecolijn committed Oct 19, 2019
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  15. GNN

    @MarHayat
    MarHayat committed Oct 19, 2019
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  16. function to create 2 panels of ggplots for larger clades

    @carolinecolijn
    carolinecolijn committed Oct 19, 2019
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  17. bug fix in getManyPlots.R

    @carolinecolijn
    carolinecolijn committed Oct 19, 2019
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  18. bug fix in getManyPlots.R

    @carolinecolijn
    carolinecolijn committed Oct 19, 2019
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  19. Return a data frame of growth ratios

    @dfornika
    dfornika committed Oct 19, 2019
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  20. Merge branch 'master' of github.com:hackseq/hs19-flu

    @dfornika
    dfornika committed Oct 19, 2019
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  21. Update README.md

    @carolinecolijn
    carolinecolijn committed Oct 19, 2019
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  22. Truncate at end of Feb and change growth_ratio function to take two t… 

    …rees and list of clades
    @dfornika
    dfornika committed Oct 19, 2019
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  23. Merge branch 'master' of github.com:hackseq/hs19-flu

    @dfornika
    dfornika committed Oct 19, 2019
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Commits on Oct 20, 2019

  1. Merge branch 'theme1'

    @bricoletc
    bricoletc committed Oct 20, 2019
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  2. adding notes on modelling larger clades

    @carolinecolijn
    carolinecolijn committed Oct 20, 2019
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  3. Rename labels_clades_dates.csv files to match alignment files

    @dfornika
    dfornika committed Oct 20, 2019
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  4. why have the .tree files moved? adding a nwk for h3n2 ha

    @carolinecolijn
    carolinecolijn committed Oct 20, 2019
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  5. new version of plotClades for larger clades

    @carolinecolijn
    carolinecolijn committed Oct 20, 2019
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  6. Remove unnecessary source() command

    @dfornika
    dfornika committed Oct 20, 2019
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  7. Add three functions to larger_scale_features.R

    @dfornika
    dfornika committed Oct 20, 2019
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  8. Remove functions that were moved to larger_scale_features.R

    @dfornika
    dfornika committed Oct 20, 2019
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  9. tidy up notes_plots_largerclades.R

    @dfornika
    dfornika committed Oct 20, 2019
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  10. Fill in info for notes_plots_largerclades.R

    @dfornika
    dfornika committed Oct 20, 2019
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  11. Add WHO clades data file

    @dfornika
    dfornika committed Oct 20, 2019
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  12. HA to NA mapping file, R script getting GC content and hamming distan… 

    …ces and csv file with all features calculated can be matched back by root id
    @qpmnguyen
    qpmnguyen committed Oct 20, 2019
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  13. Joined all epitope and non-epitpe features with NA features into one … 

    …rds file; removing outlier removal at the processing stage
    @qpmnguyen
    qpmnguyen committed Oct 20, 2019
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  14. Update README.md

    @MarHayat
    MarHayat committed Oct 20, 2019
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  15. adding build_map.sh and Pak's version of GC calculation result

    @sfpacman
    sfpacman committed Oct 20, 2019
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  16. Merge https://github.com/hackseq/hs19-flu

    @sfpacman
    sfpacman committed Oct 20, 2019
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  17. Graph based features for subtrees from tree constructed from NA trees

    @qpmnguyen
    qpmnguyen committed Oct 20, 2019
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  18. H1N1labels

    @MarHayat
    MarHayat committed Oct 20, 2019
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  19. Adding README for processed_dat folder

    @qpmnguyen
    qpmnguyen committed Oct 20, 2019
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  20. Merge pull request #5 from hackseq/theme1 

    Add Theme1
    @FrankWhoee
    FrankWhoee committed Oct 20, 2019
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  21. Add logo

    @FrankWhoee
    FrankWhoee committed Oct 20, 2019
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Commits on Oct 22, 2019

  1. Merge branch 'theme1'

    @ivanpmartell
    ivanpmartell committed Oct 22, 2019
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