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Shiny #582

Merged
merged 79 commits into from
Oct 19, 2023
Merged

Shiny #582

merged 79 commits into from
Oct 19, 2023

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Sichao25
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Create Shiny web applications for the following features:

  • LAP
  • perturbation

@Sichao25
initial commit for shiny module
07ce38a
@Sichao25
add shiny modeule to dynamo
eeeb60d
@Sichao25
initial commit for perturbation shiny app
e5c879c
@Sichao25
add params expression to perturbation app
a2e4874
@Sichao25
reformat the sidebar
8f8ce4a
@Sichao25
create a button
0dc0970
@Sichao25
split into two steps
2486c7e
@Sichao25
use input data in web app
331f83e
@Sichao25
remove colorbar from perturbation app
cf41d2e
@Sichao25
initial commit for lap shiny app
33c99ae
@Sichao25
create utils filter_fig
794ddb2
@Sichao25
add select_cells feature
9b0ec2c
@Sichao25
implement lap initialization
e5065a6
@Sichao25
create run_lap func in shiny app
7df0b01
@Sichao25
add visualize_lap
081a0bb
@Sichao25
debug lap web app
3b8fe27
@Sichao25
reformat lap webapp
ebf8501
@Sichao25
add prepare tfs
75a2619
@Sichao25
add tfs barplot
26ed11d
@Sichao25
debug tfs prepare
1778334
@Sichao25
add pairwise_cell_fate_heatmap
339db45
@Sichao25
make colormap a input
52537c4
@Sichao25
debug cell fate heatmap subplot output
6fe6f20
@Sichao25
add lap kinetic heatmap
6208ad5
@Sichao25
add add_known_tf
a9f3f18
@Sichao25
reformat streamline plot button
b87ec63
@Sichao25
reformat lap sidebar
b45b1a7
@Sichao25
add button to sidebar
2bece40
@Sichao25
add add_reprog_info
b359e0f
@Sichao25
add plot_priority_scores
fcab886
Sichao25 added 28 commits October 3, 2023 17:42
@Sichao25
implement interactive initial points selection
f6ead30
@Sichao25
add a basic visualization before perturbation
c348c30
@Sichao25
add table output for perturbation
bfbb7e9
@Sichao25
add genes ranking barplot
4420475
@Sichao25
add progress bar
4b22b7c
@Sichao25
reformat the initialization panel
62c214d
@Sichao25
implement optional tf names input
c73176b
@Sichao25
reformat the tab panel
c3fee9b
@Sichao25
debug shiny import
6d1f923
@Sichao25
refactor perturbation shiny
7c8b6ef
@Sichao25
implement genes barplot
768335a
@Sichao25
optimize base streamline plot control
221de72
@Sichao25
optimize lap main
dcd0e52
@Sichao25
optimize TFs barplot
05c998a
@Sichao25
reformat the lap analyses
9ba75ba
@Sichao25
remove sidebar
eb25c1f
@Sichao25
reformat lap kinetic heatmap
cea18c8
@Sichao25
remove and reformat sidebar from TFs analysis
7ea30a5
@Sichao25
optimize add known TFs
6104b9c
@Sichao25
optimize TFs plot
5c30247
@Sichao25
reorganize TFs button
3808b01
@Sichao25
add text explanation to the analyses
efbc1db
@Sichao25
add more instructions to control panel
e12e433
@Sichao25
debug updating plot
dcb16f8
@Sichao25
add a global view on lap time barplot
5aec340
@Sichao25
reimplement kinetic heatmap with transition input
c27f707
@Sichao25
debug roc curve
eb33f63
@Sichao25
minor polishment to the text
6fce33b
@Sichao25 Sichao25 marked this pull request as ready for review October 17, 2023 19:04
@Xiaojieqiu Xiaojieqiu merged commit af03fbc into aristoteleo:master Oct 19, 2023
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3 participants
@Sichao25 @codecov-commenter @Xiaojieqiu