- GeneTonic
- Graph
- c32b540
(HEAD -> master, origin/master, origin/HEAD)
bump x.y.z version to odd y following creation of RELEASE_3_16 branch by
J Wokaty <jennifer.wokaty@sph.cuny.edu>
2022-11-01 11:21:18 -0400;
- cbc0a9f
(origin/RELEASE_3_16, RELEASE_3_16)
bump x.y.z version to even y prior to creation of RELEASE_3_16 branch by
J Wokaty <jennifer.wokaty@sph.cuny.edu>
2022-11-01 11:21:18 -0400;
- ef97f2a
version bump, 2.1.7 by
Federico Marini <marinif@uni-mainz.de>
2022-10-29 15:25:24 +0200;
- d262193
avoiding using FA icons as buttons in the vignette, after recent changes in the fontawesome package breaking the build by
Federico Marini <marinif@uni-mainz.de>
2022-10-29 15:24:44 +0200;
- 2ee139c
updating GHA version linked by
Federico Marini <marinif@uni-mainz.de>
2022-10-20 11:44:52 +0200;
- 9a5bc27
version bump, 2.1.6 by
Federico Marini <marinif@uni-mainz.de>
2022-10-20 11:43:05 +0200;
- d1a1d48
fixing namespace after backbone updates by
Federico Marini <marinif@uni-mainz.de>
2022-10-20 11:39:44 +0200;
- 6e4a5e2
Merge pull request <a href="#43">#43</a> from federicomarini/better_colors by
Federico Marini <marinif@uni-mainz.de>
2022-10-07 16:54:01 +0200;
-
- ba00c6f
removing extra --- in the vignette, putting a <hr> tag by
Federico Marini <marinif@uni-mainz.de>
2022-10-07 16:01:42 +0200;
- f9096e0
Merge pull request <a href="#42">#42</a> from federicomarini/heatmap_winsorized by
Federico Marini <marinif@uni-mainz.de>
2022-10-07 15:26:45 +0200;
-
- 63998e9
version bump, 2.1.5 by
Federico Marini <marinif@uni-mainz.de>
2022-10-07 15:26:19 +0200;
- cf6a2c2
updating news by
Federico Marini <marinif@uni-mainz.de>
2022-10-07 15:26:11 +0200;
- dd9ad84
fixing test for positive-zscores only subset by
Federico Marini <marinif@uni-mainz.de>
2022-10-07 14:42:32 +0200;
- c161825
cleanups and na.omit()ting by
Federico Marini <marinif@uni-mainz.de>
2022-10-07 14:25:37 +0200;
- 8026293
fixing graph backbone function where NAs are around by
Federico Marini <marinif@uni-mainz.de>
2022-10-07 14:25:19 +0200;
- 4ca0178
giving neutral color to NA values in the emap as well by
Federico Marini <marinif@uni-mainz.de>
2022-10-07 13:52:07 +0200;
- 40ea094
specifying to omit the NA from the ranges calculations by
Federico Marini <marinif@uni-mainz.de>
2022-10-07 13:42:32 +0200;
- c21088d
manpage re-rendered by
Federico Marini <marinif@uni-mainz.de>
2022-10-07 13:31:56 +0200;
- e5e3257
gs dendrogram also better respecting the range of values for mapping to values by
Federico Marini <marinif@uni-mainz.de>
2022-10-07 13:31:48 +0200;
- db4ae46
changing example way of presenting the enrichment map in the vignette by
Federico Marini <marinif@uni-mainz.de>
2022-10-07 13:20:26 +0200;
- fe3cb4d
enrichment map colors are handled respecting better the range of values by
Federico Marini <marinif@uni-mainz.de>
2022-10-07 13:20:09 +0200;
- 9d66329
map2color gains the option of becoming symmetrical to the extreme values - useful if these are diverging by
Federico Marini <marinif@uni-mainz.de>
2022-10-07 13:18:59 +0200;
-
- 6b931c4
Merge branch 'master' into heatmap_winsorized by
Federico Marini <marinif@uni-mainz.de>
2022-10-06 18:13:21 +0200;
-
-
-
- f22ba73
version bump, 2.1.4 by
Federico Marini <marinif@uni-mainz.de>
2022-10-05 21:01:20 +0200;
- 1578954
updated NEWS by
Federico Marini <marinif@uni-mainz.de>
2022-10-05 21:01:06 +0200;
- e6abb60
extending the test suite to cover the case where a gene is in the enrichment results table but not present in the annotation (e.g. annotations are updated, so some correspondences might get lost) by
Federico Marini <marinif@uni-mainz.de>
2022-10-05 20:58:55 +0200;
- 8f90912
* preventing genes not included in the annotation to trigger an error if NA - no match were found. * also presents an informative message on which genesets/genes are potentially responsible by
Federico Marini <marinif@uni-mainz.de>
2022-10-05 20:57:57 +0200;
- aac6649
fixed indenting by
Federico Marini <marinif@uni-mainz.de>
2022-10-04 10:54:05 +0200;
- b9ece33
version bump, 2.1.4 by
Federico Marini <marinif@uni-mainz.de>
2022-09-21 17:29:53 +0200;
- af1ca8f
updated news by
Federico Marini <marinif@uni-mainz.de>
2022-09-21 17:29:43 +0200;
- 7edf46a
test suite extended to cover also some examples of winsorizing the vst expression data by
Federico Marini <marinif@uni-mainz.de>
2022-09-21 17:14:05 +0200;
- 4ea2216
extending documentation with some suggested values by
Federico Marini <marinif@uni-mainz.de>
2022-09-21 17:07:57 +0200;
- 0ab557e
re-rendering manpage by
Federico Marini <marinif@uni-mainz.de>
2022-09-21 17:04:52 +0200;
- ee025e9
adding parameter and functionality to do some basic winsorization on the heatmap values by
Federico Marini <marinif@uni-mainz.de>
2022-09-21 17:04:39 +0200;
-
- ce8572a
bump roxygen version by
Federico Marini <marinif@uni-mainz.de>
2022-09-07 17:50:19 +0200;
- 19e79ae
(origin/RELEASE_3_15, RELEASE_3_15)
version bump, 2.0.2 for release bugfix by
Federico Marini <marinif@uni-mainz.de>
2022-08-03 10:42:03 +0200;
- bdd08d7
updated news by
Federico Marini <marinif@uni-mainz.de>
2022-08-03 10:37:44 +0200;
- f7e8a67
fixed the row names on the heatmap, now taking the gene_id column from the anno_df instead of the rownames by
Annekathrin Silvia Ludt <annekathrin@zdv-vpn01-38-62.zdv.Uni-Mainz.DE>
2022-08-02 15:32:21 +0200;
- 2bdf9b4
Merge pull request <a href="#38">#38</a> from federicomarini/heatmap_fix by
Federico Marini <marinif@uni-mainz.de>
2022-08-03 10:38:09 +0200;
-
- 4fa283a
version bump, 2.1.3 by
Federico Marini <marinif@uni-mainz.de>
2022-08-03 10:37:53 +0200;
- d694bc2
updated news by
Federico Marini <marinif@uni-mainz.de>
2022-08-03 10:37:44 +0200;
- 70c8619
fixed the row names on the heatmap, now taking the gene_id column from the anno_df instead of the rownames by
Annekathrin Silvia Ludt <annekathrin@zdv-vpn01-38-62.zdv.Uni-Mainz.DE>
2022-08-02 15:32:21 +0200;
-
- 11c851b
updated NEWS by
Federico Marini <marinif@uni-mainz.de>
2022-06-10 16:22:06 +0200;
- 6d01cdf
updated NEWS by
Federico Marini <marinif@uni-mainz.de>
2022-06-10 16:22:06 +0200;
- e3c9ea0
Version bump, 2.0.1 by
Federico Marini <marinif@uni-mainz.de>
2022-06-10 16:20:53 +0200;
- f4fda95
updating citation(s) for the package by
Federico Marini <marinif@uni-mainz.de>
2022-05-01 10:57:49 +0200;
- f6814b3
fixing the usage of reactive element after aggregating the scores on the fly by
Federico Marini <marinif@uni-mainz.de>
2022-05-19 19:50:05 +0200;
- 2e2b98a
Merge pull request <a href="#36">#36</a> from federicomarini/reacto_fix by
Federico Marini <marinif@uni-mainz.de>
2022-05-27 16:08:38 +0200;
-
- a6b0f49
update gh actions by
Federico Marini <marinif@uni-mainz.de>
2022-05-27 16:08:07 +0200;
- d14e3c1
Merge pull request <a href="#35">#35</a> from federicomarini/reacto_fix by
Federico Marini <marinif@uni-mainz.de>
2022-05-27 16:07:35 +0200;
-
- b42640a
updating gh actions to use Mike's with specific Bioc versioning by
Federico Marini <marinif@uni-mainz.de>
2022-05-27 15:16:01 +0200;
- 7fbd484
version bump, 2.1.2 by
Federico Marini <marinif@uni-mainz.de>
2022-05-19 20:15:24 +0200;
- f5953af
updating roxygen version number, while we are at it by
Federico Marini <marinif@uni-mainz.de>
2022-05-19 19:53:36 +0200;
- f1cc8fe
fixing the usage of reactive element after aggregating the scores on the fly by
Federico Marini <marinif@uni-mainz.de>
2022-05-19 19:50:05 +0200;
-
- bf4969a
version bump, 2.1.1 by
Federico Marini <marinif@uni-mainz.de>
2022-05-01 10:59:16 +0200;
- c192ce4
updating citation(s) for the package by
Federico Marini <marinif@uni-mainz.de>
2022-05-01 10:57:49 +0200;
- 29295b2
bump x.y.z version to odd y following creation of RELEASE_3_15 branch by
Nitesh Turaga <nitesh.turaga@gmail.com>
2022-04-26 16:02:24 +0000;
-
- f15fe5f
bump x.y.z version to even y prior to creation of RELEASE_3_15 branch by
Nitesh Turaga <nitesh.turaga@gmail.com>
2022-04-26 16:02:24 +0000;
- ca561a1
Merge pull request <a href="#28">#28</a> from federicomarini/gtl_at_runtime by
Federico Marini <marinif@uni-mainz.de>
2022-04-06 13:18:23 +0200;
-
- 69b94e9
version bump, 1.99.3 by
Federico Marini <marinif@uni-mainz.de>
2022-04-06 13:04:19 +0200;
- bac708b
fixing typo and re-rendering manpages by
Federico Marini <marinif@uni-mainz.de>
2022-04-06 12:07:44 +0200;
- 0204ac2
updated news by
Federico Marini <marinif@uni-mainz.de>
2022-04-06 12:07:19 +0200;
- be6f118
Version bump, 1.99.2 by
Federico Marini <marinif@uni-mainz.de>
2022-04-04 17:26:14 +0200;
- aeb61f0
expanding tour about GeneSpector component by
Federico Marini <marinif@uni-mainz.de>
2022-04-04 17:22:17 +0200;
- adc0b0a
additional content about the upload functionality in the vignette by
Federico Marini <marinif@uni-mainz.de>
2022-04-04 17:11:05 +0200;
- 7e7ee14
adding specific example for GeneTonic run without input data by
Federico Marini <marinif@uni-mainz.de>
2022-04-04 17:10:48 +0200;
- df4db08
fixing the help for gtl upload by
Federico Marini <marinif@uni-mainz.de>
2022-04-04 17:10:31 +0200;
- 61fff72
rerendered manpage by
Federico Marini <marinif@uni-mainz.de>
2022-03-30 15:00:58 +0200;
- 3f88564
one round of styler on recent R source files by
Federico Marini <marinif@uni-mainz.de>
2022-03-30 15:00:28 +0200;
- ada1cfb
Version bump, 1.99.1 by
Federico Marini <marinif@uni-mainz.de>
2022-03-30 12:16:01 +0200;
- 96def07
updated NEWS.md by
Federico Marini <marinif@uni-mainz.de>
2022-03-30 12:15:50 +0200;
- 76862dc
Merge pull request <a href="#33">#33</a> from federicomarini/gsupset by
Federico Marini <marinif@uni-mainz.de>
2022-03-30 12:11:52 +0200;
-
- 20e8261
fixing example by
Federico Marini <marinif@uni-mainz.de>
2022-03-30 12:11:00 +0200;
- ee5589f
Merge pull request <a href="#32">#32</a> from federicomarini/gsupset by
Federico Marini <marinif@uni-mainz.de>
2022-03-30 12:05:07 +0200;
-
- 77da2f0
full suite of unit tests for the gs_upset functionality by
Federico Marini <marinif@uni-mainz.de>
2022-03-30 11:58:59 +0200;
- b14ee13
updated testing setup by
Federico Marini <marinif@uni-mainz.de>
2022-03-30 11:58:40 +0200;
- 1971f76
added manpages for upset related functionality by
Federico Marini <marinif@uni-mainz.de>
2022-03-30 11:58:28 +0200;
- 9d5079e
added functionality to plot geneset upset plots by
Federico Marini <marinif@uni-mainz.de>
2022-03-30 11:58:00 +0200;
- e734002
updated news by
Federico Marini <marinif@uni-mainz.de>
2022-03-29 12:55:58 +0200;
- 3a5df49
Version bump, 1.99.0 by
Federico Marini <marinif@uni-mainz.de>
2022-03-28 17:42:56 +0200;
- 826e602
Updated news by
Federico Marini <marinif@uni-mainz.de>
2022-03-28 17:42:41 +0200;
- d71f130
Merge branch 'gtl_at_runtime' of github.com:federicomarini/GeneTonic into gtl_at_runtime by
Federico Marini <marinif@uni-mainz.de>
2022-03-28 16:52:36 +0200;
-
- b607442
Completing text section for the help in the data upload section by
Federico Marini <marinif@uni-mainz.de>
2022-03-28 16:52:18 +0200;
- 1afd76c
adding vignette screenshot by
Federico Marini <marinif@uni-mainz.de>
2022-03-28 16:51:55 +0200;
- e72944b
Adding sections in the vignette for describing the new functionality by
Federico Marini <marinif@uni-mainz.de>
2022-03-28 16:51:25 +0200;
- 54c36d4
tweaking the UI for the upload section by
Federico Marini <marinif@uni-mainz.de>
2022-03-28 16:50:45 +0200;
- 6d4933b
rerendering manpages and namespace by
Federico Marini <marinif@uni-mainz.de>
2022-03-28 15:30:11 +0200;
- d35ee64
replacing occurrencies of GeneTonic_list with the newer GeneTonicList by
Federico Marini <marinif@uni-mainz.de>
2022-03-28 12:43:21 +0200;
- a20b7df
adding synonim creator function for the GeneTonicList objects, keeping older one for backwards compatibility by
Federico Marini <marinif@uni-mainz.de>
2022-03-28 12:42:30 +0200;
- 9655f8b
Merge pull request <a href="#31">#31</a> from federicomarini/upload_checked by
Federico Marini <marinif@uni-mainz.de>
2022-03-26 01:23:54 +0100;
-
- c9ee95b
(origin/RELEASE_3_14, RELEASE_3_14)
Version bump, 1.6.4 by
Federico Marini <marinif@uni-mainz.de>
2022-03-24 13:30:47 +0100;
- 9b0a76c
Rerendering manpages and namespace by
Federico Marini <marinif@uni-mainz.de>
2022-03-24 13:30:18 +0100;
- 7e4fbe3
Version bump, 1.6.4 by
Federico Marini <marinif@uni-mainz.de>
2022-03-24 12:40:24 +0100;
- 4e7c769
backbone functions update - hyperg replaced by fixedrow by
Federico Marini <marinif@uni-mainz.de>
2022-01-19 17:22:34 +0100;
- c0da0b9
handling the check of having data uploaded in the current format, via tryCatch for the readRDS ingestion by
Federico Marini <marinif@uni-mainz.de>
2022-03-22 15:12:48 +0100;
-
- 6849b32
Merge branch 'master' into gtl_at_runtime by
Federico Marini <marinif@uni-mainz.de>
2022-03-22 00:16:21 +0100;
-
-
-
- 9ed4732
version bump, 1.7.4 by
Federico Marini <marinif@uni-mainz.de>
2022-03-22 00:12:32 +0100;
- c561895
Version bump, 1.6.2 by
Federico Marini <marinif@uni-mainz.de>
2022-03-22 00:11:06 +0100;
- f23a675
adjusting calls to funcs of backbone, adapting to recent code changes/param renaming by
Federico Marini <marinif@uni-mainz.de>
2022-03-22 00:05:01 +0100;
- 82e0844
Merge pull request <a href="#30">#30</a> from federicomarini/bb_newparamname by
Federico Marini <marinif@uni-mainz.de>
2022-03-22 00:06:28 +0100;
-