|
|
44e170f5a6
|
Small documentation improvements
|
2023-09-27 13:24:23 +02:00 |
|
|
|
3e19f53d2a
|
Add dependency on ranger
|
2023-09-27 13:22:24 +02:00 |
|
|
|
e19f154ab5
|
Update data to Ensembl 110
|
2023-09-27 13:11:08 +02:00 |
|
|
|
b4fb39f8de
|
Require R 4.1
|
2023-09-27 12:57:45 +02:00 |
|
|
|
8cf63d26f6
|
Add link to geposanui
|
2022-11-28 15:57:13 +01:00 |
|
|
|
2b859b55dd
|
adjacency: Combine reference genes first
|
2022-08-18 19:22:21 +02:00 |
|
|
|
8cde59c1c7
|
clustering: Increase default cluster span
|
2022-08-18 19:22:21 +02:00 |
|
|
|
ba55aa124e
|
plots: Rotate and simplify boxplot
|
2022-08-18 19:22:21 +02:00 |
|
|
|
c8b94fade8
|
plots: Improve hoverinfo in correlation plot
|
2022-08-18 19:22:21 +02:00 |
|
|
|
0440d5931c
|
plots: Fix colors in scores by position plot
|
2022-08-18 19:22:21 +02:00 |
|
|
|
aee77e8bb5
|
distance: Switch from median to density estimate
|
2022-08-18 19:22:21 +02:00 |
|
|
|
98ee52b122
|
plots: Add rankings correlation plot
|
2022-08-18 19:22:21 +02:00 |
|
|
|
60dc05f6c6
|
Namespace all method IDs
|
2022-08-18 19:22:21 +02:00 |
|
|
|
038208bfbd
|
Implement random forest model method
|
2022-08-18 19:22:21 +02:00 |
|
|
|
6cc9196a0d
|
Rename method proximity to distance
|
2022-08-18 19:22:21 +02:00 |
|
|
|
0f53c3e798
|
Rename method proximity to distance
|
2022-08-18 19:22:21 +02:00 |
|
|
|
463faf0fbe
|
plots: Replace max rank with percentile lines
|
2022-08-18 19:22:21 +02:00 |
|
|
|
8812c9579f
|
Add ORCID to description
|
2022-06-28 13:57:07 +02:00 |
|
|
|
260705785a
|
clusteriness: Remove n_clusters and relation
|
2022-06-28 13:31:36 +02:00 |
|
|
|
0ae6836d86
|
Remove species adjacency method
|
2022-06-28 13:06:59 +02:00 |
|
|
|
ab545a415c
|
clustering: Expose clusteriness parameters
|
2022-06-22 13:40:00 +02:00 |
|
|
|
c6ca93b009
|
Allow customizing method metadata
|
2022-06-22 13:40:00 +02:00 |
|
|
|
0e4f4621ed
|
Allow to set relation for cluster size
|
2022-06-22 13:40:00 +02:00 |
|
|
|
fddd0c3fa0
|
Fix preset bug when filtering species
|
2022-06-22 13:40:00 +02:00 |
|
|
|
2529f35660
|
Allow to limit number of clusters for clusteriness
|
2022-06-22 13:40:00 +02:00 |
|
|
|
3df4ec5d89
|
compare: Include confidence intervals
|
2022-06-03 17:41:45 +02:00 |
|
|
|
3217c9bd29
|
preset: Filter species in addition to genes
|
2022-05-30 13:49:52 +02:00 |
|
|
|
9e96c54f23
|
plots: Decrease marker size for input data plot
|
2022-05-28 17:11:53 +02:00 |
|
|
|
abf78f27d3
|
plots: Sort species in input data plot
|
2022-05-28 17:01:31 +02:00 |
|
|
|
d144f490a0
|
plots: Switch axes of input data plot
|
2022-05-28 16:15:33 +02:00 |
|
|
|
49981300fb
|
neural: Refactor and increase gene requirement
|
2022-05-26 19:50:23 +02:00 |
|
|
|
c04b6337e9
|
Reindent code to use just two spaces
|
2022-05-26 12:42:19 +02:00 |
|
|
|
a1e6147466
|
Add option to show all chromosomes in positions plot
|
2022-05-23 11:40:28 +02:00 |
|
|
|
d83dfa0574
|
Fix and enhance hover info in plots
|
2022-05-20 10:12:47 +02:00 |
|
|
|
b17eb049d1
|
Add hover information to positions plot
|
2022-05-19 17:09:19 +02:00 |
|
|
|
e41d02c659
|
Implement gene set highlighting in positions plot
|
2022-05-18 17:29:35 +02:00 |
|
|
|
7e53015168
|
Add chromosomal positions plot
|
2022-05-17 21:48:30 +02:00 |
|
|
|
9590babb1a
|
Add some missing import qualifiers
|
2022-05-12 18:43:25 +02:00 |
|
|
|
5bfd20b6b6
|
Update to Ensembl 106
This also introduces some additional columns to the stored data tables.
|
2022-04-22 13:21:54 +02:00 |
|
|
|
2427e8c0c0
|
plots: Unify colors
|
2022-03-01 15:49:04 +01:00 |
|
|
|
2fb48be0e3
|
proximity: Use median distance by default
|
2022-02-24 17:44:04 +01:00 |
|
|
|
99bc6794b9
|
Revert "proximity: Remove method"
This reverts commit ac9894e988.
|
2022-02-24 17:39:44 +01:00 |
|
|
|
54e3b433f7
|
analyze: Allow to exclude detailed results
|
2022-02-24 15:57:27 +01:00 |
|
|
|
074902b505
|
Use median by default in adjacency methods
|
2022-02-24 15:36:07 +01:00 |
|
|
|
33cc33f81a
|
ranking: Remove caching for optimization
|
2022-02-24 14:51:15 +01:00 |
|
|
|
57fc119993
|
preset: Fix documentation cross-reference
|
2022-02-24 14:43:41 +01:00 |
|
|
|
7fe07aceec
|
correlation: Make summary function customizable
This commit also changes the default behavior to using
`stats::median()`.
|
2022-02-24 14:43:41 +01:00 |
|
|
|
3cedc4fea4
|
validate: Update and extend
|
2022-01-26 11:38:39 +01:00 |
|
|
|
016a9ada9d
|
comparison: Add more useful information
|
2022-01-26 10:56:35 +01:00 |
|
|
|
c633b17db6
|
Rename method source files
|
2022-01-26 09:59:44 +01:00 |
|
