|
|
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 |
|
|
|
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 |
|
|
|
53f955f3da
|
Add species adjacency method
|
2022-01-19 11:18:27 +01:00 |
|
|
|
c8f1e522f9
|
preset: Make reference genes the first parameter
|
2022-01-17 19:52:51 +01:00 |
|
|
|
8cda3e8e83
|
adjacency: Revert to density estimate
This reverts commit 23bb499d3a.
|
2022-01-13 18:35:02 +01:00 |
|
|
|
fa49a5a887
|
correlation: Score based on best correlation
|
2022-01-09 21:32:37 +01:00 |
|
|
|
23bb499d3a
|
adjacency: Use median as estimate
|
2022-01-09 21:27:30 +01:00 |
|
|
|
32776469bf
|
adjacency: Use minimum difference in distances
|
2022-01-09 21:14:30 +01:00 |
|
|
|
2ceda0691b
|
adjacency: Make distance estimation customizable
|
2022-01-09 20:21:27 +01:00 |
|
|
|
ac9894e988
|
proximity: Remove method
|
2022-01-09 19:54:05 +01:00 |
|
|
|
910bf85719
|
clustering: Reduce default span to 100,000
|
2022-01-09 19:54:05 +01:00 |
|
|
|
a0dce372b6
|
ranking: Compute percentiles
|
2022-01-09 19:54:05 +01:00 |
|
|
|
e2b93babe5
|
Restructure classes and their responsibilities
|
2022-01-09 19:54:05 +01:00 |
|
|
|
01ec301d6d
|
data: Remove absolute positions
|
2022-01-04 14:58:49 +01:00 |
|
|
|
35fb5e3884
|
Add cross-validation function
|
2022-01-04 14:58:49 +01:00 |
|
|
|
a347bf0ad4
|
plots: Refactor and improve
|
2021-12-02 17:23:18 +01:00 |
|
|
|
f997b5fdd7
|
plots: Add rankings plot
|
2021-12-02 15:28:03 +01:00 |
|
|
|
f2bc4318a2
|
Fix some package issues
|
2021-11-23 09:42:21 +01:00 |
|
|
|
255123c74f
|
Regenerate documentation
|
2021-11-22 14:10:22 +01:00 |
|
|
|
5a58f457a4
|
analyze: Add optimization
|
2021-11-19 15:07:15 +01:00 |
|
|
|
de1c1ed40e
|
preset: Remove min_n_species customization
|
2021-11-18 14:03:11 +01:00 |
|
|
|
33056bfa40
|
Move species count to analysis
|
2021-11-18 14:03:11 +01:00 |
|
|
|
e28bcaafed
|
plots: Add position plot
|
2021-11-15 15:12:13 +01:00 |
|
|
|
19bae34a96
|
plots: Add max_rank to score plot
|
2021-11-15 09:21:37 +01:00 |
|
|
|
4dda7fa49e
|
ranking: Filter out species with too few species
|
2021-11-12 10:25:07 +01:00 |
|
|
|
910eb06fe9
|
analyze: Include preset in result
|
2021-11-12 10:16:11 +01:00 |
|
|
|
6d9511fa2e
|
Fix some package issues
|
2021-11-06 13:22:57 +01:00 |
|
|
|
28f9834984
|
plots: Move rank plot and add boxplot
|
2021-11-06 13:03:36 +01:00 |
|
|
|
d075380559
|
ranking: Add plot method
|
2021-11-05 23:05:40 +01:00 |
|
|
|
f98800f1e0
|
Add comparison feature
|
2021-11-05 19:08:50 +01:00 |
|
|
|
4992bb2930
|
ranking: Use S3 classes and rename optimize method
|
2021-11-05 14:47:33 +01:00 |
|
|
|
55958e0d85
|
preset: Turn into S3 class
|
2021-11-03 14:17:39 +01:00 |
|
|
|
c0a1d965d7
|
Add more optimization targets
|
2021-10-21 11:42:44 +02:00 |
|
|
|
064f75ddae
|
data: Remove n_species from genes
|
2021-10-21 11:42:16 +02:00 |
|
|
|
37f468658c
|
Add framework for progress information
|
2021-10-19 15:03:10 +02:00 |
|
|
|
c52d42c2b6
|
Initial commit
|
2021-10-19 13:39:55 +02:00 |
|
