Update theme1 branch and add visualization data - #4

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FrankWhoee wants to merge 45 commits into

Commits on Oct 19, 2019

H3N2rooted
MarHayat
authored
4b544e7
fixed bug in function in larger scale features
carolinecolijn
committed
44605d8
Add my scratchpad file
dfornika
committed
f267e31
Fixed bug where list does not have a name for trees
qpmnguyen
committed
de34c20
Merge branch 'master' of https://github.com/hackseq/hs19-flu
qpmnguyen
committed
4c22bd0
Added graph neural networks approach
saraswatmanu
authored
9ad5a73
Update README.md
carolinecolijn
authored
63953c6
Update my scratchpad
dfornika
committed
2b7dbec
Update my scratchpad
dfornika
committed
79e930e
adding R notes for using and plotting functions for clades through time
carolinecolijn
committed
c8b9fcd
fix in gen dist
carolinecolijn
committed
501458e
fix in gen dist
carolinecolijn
committed
1e94c6a
fix in gen dist
carolinecolijn
committed
af9e7e4
fix in gen dist
carolinecolijn
committed
84f9127
GNN
MarHayat
authored
3f7436b
function to create 2 panels of ggplots for larger clades
carolinecolijn
committed
592a73b
bug fix in getManyPlots.R
carolinecolijn
committed
65c3897
bug fix in getManyPlots.R
carolinecolijn
committed
1c34dda
Return a data frame of growth ratios
dfornika
committed
ed5d345
Merge branch 'master' of github.com:hackseq/hs19-flu
dfornika
committed
7edab95
Update README.md
carolinecolijn
authored
ebbb234
Truncate at end of Feb and change growth_ratio function to take two trees and list of clades
dfornika
committed
cb6453f
Merge branch 'master' of github.com:hackseq/hs19-flu
dfornika
committed
3c1d696

Commits on Oct 20, 2019

Merge branch 'theme1'
bricoletc
committed
aa48f6c
adding notes on modelling larger clades
carolinecolijn
committed
89b386d
Rename labels_clades_dates.csv files to match alignment files
dfornika
committed
daf5386
why have the .tree files moved? adding a nwk for h3n2 ha
carolinecolijn
committed
7afdb81
new version of plotClades for larger clades
carolinecolijn
committed
e9d554c
Remove unnecessary source() command
dfornika
committed
296c9ec
Add three functions to larger_scale_features.R
dfornika
committed
4f59cb0
Remove functions that were moved to larger_scale_features.R
dfornika
committed
1fd5b45
tidy up notes_plots_largerclades.R
dfornika
committed
5eddda1
Fill in info for notes_plots_largerclades.R
dfornika
committed
821c7b1
Add WHO clades data file
dfornika
committed
033ab4c
HA to NA mapping file, R script getting GC content and hamming distances and csv file with all features calculated can be matched back by root id
qpmnguyen
committed
6d3c5f7
Joined all epitope and non-epitpe features with NA features into one rds file; removing outlier removal at the processing stage
qpmnguyen
committed
b8f2bc3
Update README.md
MarHayat
authored
d95bb23
adding build_map.sh and Pak's version of GC calculation result
sfpacman
committed
dca3aad
Merge https://github.com/hackseq/hs19-flu
sfpacman
committed
00deaf2
Graph based features for subtrees from tree constructed from NA trees
qpmnguyen
committed
92b6720
H1N1labels
MarHayat
authored
ae365f3
Adding README for processed_dat folder
qpmnguyen
committed
e732806
Merge pull request #5 from hackseq/theme1
FrankWhoee
authored
5d7f638
Add logo
FrankWhoee
authored
5012afc

Commits on Oct 22, 2019

Merge branch 'theme1'
ivanpmartell
committed
7f90091