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Version 2.1 #261

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merged 59 commits into from
Apr 25, 2024
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f3c24f7
add functions for preparing l-r heatmap
csangara Aug 22, 2023
47a48a7
minor change to get_lfc_celltype
csangara Aug 22, 2023
5bdbbe1
minor changes to vignettes (get_lfc_celltype)
csangara Aug 22, 2023
26a6be9
new functions for drawing circos
csangara Aug 22, 2023
2e7f699
update namespace
csangara Aug 22, 2023
2876dfc
liana vignette
csangara Aug 24, 2023
fb89663
update liana vignette
csangara Aug 24, 2023
5052dc1
update text
csangara Aug 24, 2023
104add9
changes with unranked color scaling and ... args
csangara Sep 6, 2023
cb33afe
add minmax scaling as argument
csangara Sep 6, 2023
68ce42b
fix vignette
csangara Sep 6, 2023
49bc4ee
Merge branch 'master' into devel
csangara Sep 7, 2023
56ac6b3
calculate p-value
csangara Sep 29, 2023
a8155b1
update gitignore
csangara Sep 29, 2023
11c2d5e
update seurat prioritization
csangara Sep 29, 2023
137b967
rd file
csangara Sep 29, 2023
aebda45
changed directories
csangara Sep 29, 2023
6db131c
add line plot code
csangara Nov 13, 2023
ae7f32b
replace several packages with tidyverse instead
csangara Nov 13, 2023
8e628ae
changes to mushroom and line plot for more customization
csangara Nov 15, 2023
329e8b9
Merge branch 'master' into devel
csangara Nov 15, 2023
1722805
minor change to get_lfc_celltype
csangara Nov 15, 2023
3a1e595
line_plot doc
csangara Nov 15, 2023
d5a2fc9
changed to solution that doesn't depend on R.utils
csangara Dec 20, 2023
5b64013
doc
csangara Dec 21, 2023
1685051
add parallelization to permutation
csangara Dec 21, 2023
502ec8f
add functions for nsga2r optimization
csangara Jan 3, 2024
79a2439
update man and namespace
csangara Jan 3, 2024
c5b5006
update vignette
csangara Jan 3, 2024
b40b850
minor fix
csangara Jan 24, 2024
61b994a
update seurat vignettes
csangara Jan 24, 2024
d5ba1b7
add figure
csangara Jan 24, 2024
329d275
docs update
csangara Jan 24, 2024
8514f72
minor change to seurat vignette
csangara Jan 24, 2024
151dff7
ligand activity vignette
csangara Jan 24, 2024
599d8a0
circos vignette
csangara Jan 24, 2024
c77663f
circos vignette
csangara Jan 24, 2024
a854450
ligand signaling vignette update
csangara Jan 26, 2024
d3df359
moved images to specific folder, cleaned up directory
csangara Jan 26, 2024
adf6fa6
name chunks in rmarkdown
csangara Jan 26, 2024
9b0c703
change to seurat object
csangara Jan 26, 2024
8da0f0e
readme
csangara Jan 26, 2024
b26e3a4
Merge branch 'master' into devel
csangara Jan 29, 2024
3560bfb
update doc
csangara Jan 29, 2024
7356354
update README
csangara Jan 31, 2024
ebaf9ef
change draw_ to make_circos_plot for consistent naming
csangara Jan 31, 2024
e04659c
update assay_oi doc
csangara Jan 31, 2024
985b8c5
major changes with prioritization
csangara Jan 31, 2024
837d9a8
more tests for prioritization
csangara Jan 31, 2024
5c87a0e
Add separate legend option to make_circos_lr function
csangara Jan 31, 2024
342b7c2
improved prioritization vignette
csangara Jan 31, 2024
abe4088
Update version to 2.1.0 in DESCRIPTION file
csangara Jan 31, 2024
eb168c9
minor change
csangara Feb 6, 2024
150567d
Update some functions to rename/add columns
csangara Feb 6, 2024
ce4e264
fixed tests
csangara Feb 6, 2024
145f56d
Add dependencies
csangara Feb 6, 2024
00d725c
Merge branch 'master' into devel
csangara Mar 25, 2024
c2c6dd4
add if statement for v5 object
csangara Apr 24, 2024
37dbf05
FindAllMarkers still uses 'slot' even in v5
csangara Apr 24, 2024
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Merge branch 'master' into devel
csangara committed Sep 7, 2023
commit 49bc4ee94b57c45f5fa251e4147be5353a78ed92

This merge commit was added into this branch cleanly.

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