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b1eff374b3
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Relicense to AGPL
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2021-11-25 11:16:07 +01:00 |
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c0e2dfced2
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neural: Validate models and store training data
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2021-11-23 16:26:04 +01:00 |
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7c87788cad
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neural: Use tensorflow seed
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2021-11-23 11:08:21 +01:00 |
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51e7176a1a
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Store more method results
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2021-11-23 09:56:02 +01:00 |
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f2bc4318a2
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Fix some package issues
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2021-11-23 09:42:21 +01:00 |
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599f09a52f
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Remove position analysis
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2021-11-22 15:16:05 +01:00 |
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255123c74f
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Regenerate documentation
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2021-11-22 14:10:22 +01:00 |
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2f3dc80a2f
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plots: Add chromosome plot
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2021-11-22 14:10:08 +01:00 |
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1058dfaa17
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neural: Add progress information
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2021-11-22 13:32:50 +01:00 |
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7d3bedb436
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ranking: Add optimization for median
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2021-11-21 23:56:15 +01:00 |
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61422a6a06
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neural: Reimplement merging positions and distances
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2021-11-21 23:55:56 +01:00 |
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5a58f457a4
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analyze: Add optimization
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2021-11-19 15:07:15 +01:00 |
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b018838d37
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analysis: Cache the analysis object itself
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2021-11-18 15:18:07 +01:00 |
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de1c1ed40e
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preset: Remove min_n_species customization
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2021-11-18 14:03:11 +01:00 |
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33056bfa40
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Move species count to analysis
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2021-11-18 14:03:11 +01:00 |
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f84d37dd30
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neural: Readd distances as input data
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2021-11-18 14:03:11 +01:00 |
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88d6837fee
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ranking: Allow negative weights
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2021-11-18 14:03:11 +01:00 |
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47a26da94a
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neural: Exclude genes from training for themselves
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2021-11-18 14:03:11 +01:00 |
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e28bcaafed
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plots: Add position plot
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2021-11-15 15:12:13 +01:00 |
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19bae34a96
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plots: Add max_rank to score plot
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2021-11-15 09:21:37 +01:00 |
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1af138bf6f
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neural: Always use position data
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2021-11-14 19:27:11 +01:00 |
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4b1ab9fc9a
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correlation: Fix data preparation
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2021-11-14 17:49:16 +01:00 |
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7bd63aa6d3
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proximity: Remove use_positions
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2021-11-14 17:21:39 +01:00 |
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cfc5e7a6bf
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Implement all methods using positions additionally
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2021-11-14 16:35:59 +01:00 |
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9cbc127177
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Fix some analysis bugs
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2021-11-12 18:22:22 +01:00 |
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0e641e4dd2
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ranking: Fix error copying the input
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2021-11-12 10:33:33 +01:00 |
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4dda7fa49e
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ranking: Filter out species with too few species
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2021-11-12 10:25:07 +01:00 |
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910eb06fe9
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analyze: Include preset in result
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2021-11-12 10:16:11 +01:00 |
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6d9511fa2e
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Fix some package issues
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2021-11-06 13:22:57 +01:00 |
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28f9834984
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plots: Move rank plot and add boxplot
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2021-11-06 13:03:36 +01:00 |
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d075380559
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ranking: Add plot method
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2021-11-05 23:05:40 +01:00 |
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f98800f1e0
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Add comparison feature
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2021-11-05 19:08:50 +01:00 |
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4992bb2930
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ranking: Use S3 classes and rename optimize method
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2021-11-05 14:47:33 +01:00 |
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4792bbaefd
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analyze: Turn analysis into S3 class
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2021-11-05 14:33:39 +01:00 |
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55958e0d85
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preset: Turn into S3 class
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2021-11-03 14:17:39 +01:00 |
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6494ae8200
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data: Include more chromosomes
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2021-11-02 11:00:37 +01:00 |
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df6e23d219
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Handle caching
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2021-10-21 17:25:44 +02:00 |
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b8365e0efb
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Sort preset values to get predictable hashes
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2021-10-21 16:30:26 +02:00 |
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7f2847423c
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ranking: Clamp weights to 0.0
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2021-10-21 16:21:55 +02:00 |
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21a5817988
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Properly access distance data
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2021-10-21 14:26:03 +02:00 |
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c0a1d965d7
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Add more optimization targets
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2021-10-21 11:42:44 +02:00 |
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064f75ddae
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data: Remove n_species from genes
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2021-10-21 11:42:16 +02:00 |
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0eac84377d
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Reimplement correlation with matrix based approach
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2021-10-20 11:09:37 +02:00 |
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e6bca4d515
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Fix bugs in correlation method
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2021-10-19 17:34:36 +02:00 |
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37f468658c
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Add framework for progress information
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2021-10-19 15:03:10 +02:00 |
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16e83d38a8
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Add README
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2021-10-19 13:47:33 +02:00 |
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c52d42c2b6
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Initial commit
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2021-10-19 13:39:55 +02:00 |
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