Bioconductor Code: beadarray

Graph of beadarray

21fcf33 (HEAD -> devel, origin/master, origin/devel, origin/HEAD) bump x.y.z version to odd y following creation of RELEASE_3_20 branch by J Wokaty <jennifer.wokaty@sph.cuny.edu> 2024-10-29 09:25:42 -0400;
3728fd3 (origin/RELEASE_3_20, RELEASE_3_20) bump x.y.z version to even y prior to creation of RELEASE_3_20 branch by J Wokaty <jennifer.wokaty@sph.cuny.edu> 2024-10-29 09:25:42 -0400;
82a4ade Set chunk evaluation to false that was causing failure and doesn't seem necessary by Mark Dunning <markdunning@Marks-MacBook-Pro.local> 2024-10-17 18:23:43 +0100;
e16312b Correct typo in chunk options by Mark Dunning <markdunning@ra172016200198.shef.ac.uk> 2024-10-16 12:08:21 +0100;
e5d12b7 Use Rmarkdown rather than Sweave to stop building issues by markdunning <mark.dunning@gmail.com> 2024-06-17 20:21:35 +0100;
d65889a bump x.y.z version to odd y following creation of RELEASE_3_19 branch by J Wokaty <jwokaty@users.noreply.github.com> 2024-04-30 10:14:58 -0400;
696d598 (origin/RELEASE_3_19, RELEASE_3_19) bump x.y.z version to even y prior to creation of RELEASE_3_19 branch by J Wokaty <jwokaty@users.noreply.github.com> 2024-04-30 10:14:58 -0400;
45ee237 bump x.y.z version to odd y following creation of RELEASE_3_18 branch by J Wokaty <jennifer.wokaty@sph.cuny.edu> 2023-10-24 09:36:14 -0400;
3a4da33 (origin/RELEASE_3_18, RELEASE_3_18) bump x.y.z version to even y prior to creation of RELEASE_3_18 branch by J Wokaty <jennifer.wokaty@sph.cuny.edu> 2023-10-24 09:36:14 -0400;
a101a57 bump x.y.z version to odd y following creation of RELEASE_3_17 branch by J Wokaty <jwokaty@users.noreply.github.com> 2023-04-25 09:43:07 -0400;
715d372 (origin/RELEASE_3_17, RELEASE_3_17) bump x.y.z version to even y prior to creation of RELEASE_3_17 branch by J Wokaty <jwokaty@users.noreply.github.com> 2023-04-25 09:43:07 -0400;
bdc74cc 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 10:40:39 -0400;
3db0e75 (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 10:40:39 -0400;
fab6a79 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 14:58:03 +0000;
086626e (origin/RELEASE_3_15, RELEASE_3_15) 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 14:58:03 +0000;
3ac2907 bump x.y.z version to odd y following creation of RELEASE_3_14 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2021-10-26 15:49:14 +0000;
c35a5ce (origin/RELEASE_3_14, RELEASE_3_14) bump x.y.z version to even y prior to creation of RELEASE_3_14 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2021-10-26 15:49:14 +0000;
b1f29f0 bump x.y.z version to odd y following creation of RELEASE_3_13 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2021-05-19 15:37:00 +0000;
028000c (origin/RELEASE_3_13, RELEASE_3_13) bump x.y.z version to even y prior to creation of RELEASE_3_13 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2021-05-19 15:37:00 +0000;
7ac051d bump x.y.z version to odd y following creation of RELEASE_3_12 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2020-10-27 10:28:02 -0400;
785579b (origin/RELEASE_3_12, RELEASE_3_12) bump x.y.z version to even y prior to creation of RELEASE_3_12 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2020-10-27 10:28:02 -0400;
bd82da3 bump x.y.z version to odd y following creation of RELEASE_3_11 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2020-04-27 18:12:51 +0000;
0213c96 (origin/RELEASE_3_11, RELEASE_3_11) bump x.y.z version to even y prior to creation of RELEASE_3_11 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2020-04-27 18:12:51 +0000;
1939559 (origin/RELEASE_3_10, RELEASE_3_10) fixed man page code mismatch by Mike Smith <grimbough@gmail.com> 2020-04-13 23:37:12 +0200;
f7ad1ff Fix man warning by Mike Smith <grimbough@gmail.com> 2020-04-07 16:14:01 +0200;
1ec2778 bump x.y.z version to odd y after creation of RELEASE_3_10 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2019-10-29 13:34:41 -0400;
d469fc3 bump x.y.z version to even y prior to creation of RELEASE_3_10 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2019-10-29 13:07:40 -0400;
38a7c73 Use GRangesList() instead of new("GRangesList") by Hervé Pagès <hpages@fredhutch.org> 2019-05-13 14:03:01 -0700;
f3f6825 bump x.y.z versions to odd y after creation of RELEASE_3_9 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2019-05-02 12:10:41 -0400;
0502079 (origin/RELEASE_3_9, RELEASE_3_9) bump x.y.z versions to even y prior to creation of RELEASE_3_9 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2019-05-02 11:53:05 -0400;
ad3d461 Still addressing vignette building problems by Mike Smith <grimbough@gmail.com> 2019-01-28 13:09:18 +0100;
a6cada2 Fix issue with duplicate VignetteIndex entries by Mike Smith <grimbough@gmail.com> 2019-01-25 14:37:46 +0100;
e17491c bump x.y.z versions to odd y after creation of RELEASE_3_8 branch by vobencha <vobencha@gmail.com> 2018-10-30 11:54:27 -0400;
f3f4d33 (origin/RELEASE_3_8, RELEASE_3_8) bump x.y.z versions to even y prior to creation of RELEASE_3_8 branch by vobencha <vobencha@gmail.com> 2018-10-30 11:41:42 -0400;
2c9809a Reduce example time by Mike Smith <grimbough@gmail.com> 2018-07-31 10:30:55 +0200;
3b9a779 Reduce line length by Mike Smith <grimbough@gmail.com> 2018-07-31 10:26:02 +0200;
7d019f2 Remove references to biocLite, replace with BiocManager by Mike Smith <grimbough@gmail.com> 2018-07-31 09:40:54 +0200;
46a280b bump x.y.z versions to odd y after creation of RELEASE_3_7 branch by vobencha <valerie.obenchain@roswellpark.org> 2018-04-30 10:41:36 -0400;
73dd490 (origin/RELEASE_3_7, RELEASE_3_7) bump x.y.z versions to even y prior to creation of RELEASE_3_7 branch by vobencha <valerie.obenchain@roswellpark.org> 2018-04-30 10:35:04 -0400;
e88a9a0 bump x.y.z versions to odd y after creation of RELEASE_3_6 branch by Hervé Pagès <hpages@fredhutch.org> 2017-10-30 12:52:06 -0400;
2d14216 (origin/RELEASE_3_6, RELEASE_3_6) bump x.y.z versions to even y prior to creation of RELEASE_3_6 branch by Hervé Pagès <hpages@fredhutch.org> 2017-10-30 12:39:16 -0400;
672f934 Update NEWS by Mark Dunning <markdunning@users.noreply.github.com> 2017-08-18 14:10:13 +0100;
24ca460 Update DESCRIPTION by Mark Dunning <markdunning@users.noreply.github.com> 2017-08-18 14:08:38 +0100;
ab91271 Merge remote-tracking branch 'upstream/master' by markdunning <mark.dunning@gmail.com> 2017-08-17 15:22:22 +0100;
6799cba Update README.md by Mark Dunning <markdunning@users.noreply.github.com> 2017-08-17 15:18:35 +0100;
a4da06b Create README.md by Mark Dunning <markdunning@users.noreply.github.com> 2017-08-17 15:17:49 +0100;
8babc1a Initial commit by Mark Dunning <markdunning@users.noreply.github.com> 2017-08-17 15:15:39 +0100;
723ab73 Fixes to accomodate Illumina's 12-digit naming scheme. Thanks to Simon Kalteis for the tip-off and fixes. by Mark Dunning <Mark.Dunning@cancer.org.uk> 2017-05-22 19:57:35 +0000;
45fc5a7 (origin/RELEASE_3_5, RELEASE_3_5) Allow for 12 digit chip names now used by Illumina. Thanks to Simon Kalteis for the bug report and fix by Mark Dunning <Mark.Dunning@cancer.org.uk> 2017-05-18 11:50:48 +0000;
8e333b5 bump x.y.z versions to odd y after creation of 3_5 branch by Herve Pages <hpages@fhcrc.org> 2017-04-24 19:50:57 +0000;
9bb7a4e Creating branch for BioC 3.5 release by Herve Pages <hpages@fhcrc.org> 2017-04-24 19:45:44 +0000;
ecebc6c bump x.y.z versions to even y prior to creation of 3_5 branch by Herve Pages <hpages@fhcrc.org> 2017-04-24 19:25:24 +0000;
6552f0a Fixed bug in coercing ExpressionSet to ExpressionSetIllumina by Mike Smith <mls40@cam.ac.uk> 2016-12-07 10:09:26 +0000;
290e44f bump x.y.z versions to odd 'y' after creation of 3_4 branch by Herve Pages <hpages@fhcrc.org> 2016-10-17 19:10:43 +0000;
1bd0e52 (origin/RELEASE_3_4, RELEASE_3_4) Creating branch for BioC 3.4 release by Herve Pages <hpages@fhcrc.org> 2016-10-17 19:00:47 +0000;
cd901e2 bump x.y.z versions to even 'y' prior to creation of 3_4 branch by Herve Pages <hpages@fhcrc.org> 2016-10-17 18:45:06 +0000;
b9c84a8 disable a ggbio plot from vignette by Mark Dunning <Mark.Dunning@cancer.org.uk> 2016-10-03 09:20:50 +0000;
0a1f1bb bugs in combining and ggbio by Mark Dunning <Mark.Dunning@cancer.org.uk> 2016-10-03 08:52:06 +0000;
18dd476 version number bump by Mark Dunning <Mark.Dunning@cancer.org.uk> 2016-09-30 12:54:12 +0000;
6b922c1 Re-do neqc normalisation. seems that removing NA is not needed any more? by Mark Dunning <Mark.Dunning@cancer.org.uk> 2016-09-30 12:37:14 +0000;
d19b97f Remove package startup message (no longer need to tell people that beadarray has changed) by Mark Dunning <Mark.Dunning@cancer.org.uk> 2016-09-30 11:06:27 +0000;
815ce84 (origin/RELEASE_3_3, RELEASE_3_3) Version bump to trigger package rebuilding now that purl()'ing issue has been correctly identified. knitr does not create purl()'ed (Stangle equivalent) .R files if _R_CHECK_TIMINGS_ is set, which the build system was setting. Now it's not set, so these .R files are now created. See https://github.com/yihui/knitr/issues/1212 for more. by Dan Tenenbaum <dtenenba@fhcrc.org> 2016-05-15 20:18:19 +0000;
2765e27 Version bump to trigger package rebuilding now that purl()'ing issue has been correctly identified. knitr does not create purl()'ed (Stangle equivalent) .R files if _R_CHECK_TIMINGS_ is set, which the build system was setting. Now it's not set, so these .R files are now created. See https://github.com/yihui/knitr/issues/1212 for more. by Dan Tenenbaum <dtenenba@fhcrc.org> 2016-05-15 20:14:22 +0000;
099d14c Bump version of all packages that use knitr for vignettes. This is because of an issue (now fixed) in knitr which failed to create purl()'ed R files from vignette sources and include them in the package. This version bump will cause these packages to propagate with those R files included. by Dan Tenenbaum <dtenenba@fhcrc.org> 2016-05-11 23:15:25 +0000;
eac3089 Bump version of all packages that use knitr for vignettes. This is because of an issue (now fixed) in knitr which failed to create purl()'ed R files from vignette sources and include them in the package. This version bump will cause these packages to propagate with those R files included. by Dan Tenenbaum <dtenenba@fhcrc.org> 2016-05-11 23:05:31 +0000;
2c9bc34 bump version after creating 3.3 branch by Dan Tenenbaum <dtenenba@fhcrc.org> 2016-05-03 21:30:44 +0000;
af4b719 Creating branch for BioC 3.3 release. by Dan Tenenbaum <dtenenba@fhcrc.org> 2016-05-03 21:26:31 +0000;
5c4a38f Bump versions prior to creation of 3.3 branch by Dan Tenenbaum <dtenenba@fhcrc.org> 2016-05-03 21:20:18 +0000;
0e43bab (origin/RELEASE_3_2, RELEASE_3_2) backport fix from devel by Dan Tenenbaum <dtenenba@fhcrc.org> 2016-01-13 16:34:26 +0000;
0369c2a correct names of args to ggplot2::geom_hline (y -> yintercept). Should build with latest ggbio. by Dan Tenenbaum <dtenenba@fhcrc.org> 2016-01-12 23:47:20 +0000;
7db23d4 Bumped version number of all packages after creation of 3.2 branch. by Dan Tenenbaum <dtenenba@fhcrc.org> 2015-10-13 19:59:53 +0000;
9f4c754 Creating branch for BioC 3.2 release. by Dan Tenenbaum <dtenenba@fhcrc.org> 2015-10-13 19:57:33 +0000;
76d04d1 Bumped versions of all packages prior to creating 3.2 branch. by Dan Tenenbaum <dtenenba@fhcrc.org> 2015-10-13 19:36:05 +0000;
064a5d3 Testing Rstudio submits by Mike Smith <mls40@cam.ac.uk> 2015-06-25 10:06:37 +0000;
26f007f Bump versions in trunk after creation of 3.1 branch. by Dan Tenenbaum <dtenenba@fhcrc.org> 2015-04-16 20:02:44 +0000;
3d0ad51 (origin/RELEASE_3_1, RELEASE_3_1) Creating branch for BioC 3.1 release. by Dan Tenenbaum <dtenenba@fhcrc.org> 2015-04-16 20:00:01 +0000;
f81fbcb Bump versions prior to creating 3.1 branch. by Dan Tenenbaum <dtenenba@fhcrc.org> 2015-04-16 19:42:01 +0000;
d01816a Remove a boxplot which was failing under Windows by Mark Dunning <Mark.Dunning@cancer.org.uk> 2015-04-10 09:11:08 +0000;
390b8c4 Fix readIllumina code to allow 11 digit chip names (thanks to Hauke Busch and Melanie Borries) by Mark Dunning <Mark.Dunning@cancer.org.uk> 2015-04-09 10:42:28 +0000;
d016d9b escape an underscore and fix some old Sweave syntax by Dan Tenenbaum <dtenenba@fhcrc.org> 2015-02-07 00:04:10 +0000;
5f78899 Updated location of MAQC data in vignette by Mike Smith <mls40@cam.ac.uk> 2015-01-20 18:16:12 +0000;
6d336a9 Bumping versions after creating 3.0 release branch. by Dan Tenenbaum <dtenenba@fhcrc.org> 2014-10-13 21:47:41 +0000;
78fbbdf (origin/RELEASE_3_0, RELEASE_3_0) Creating branch for BioC 3.0 release. by Dan Tenenbaum <dtenenba@fhcrc.org> 2014-10-13 21:46:02 +0000;
c0679d6 Bump package versions prior to creating the 3.0 branch. by Dan Tenenbaum <dtenenba@fhcrc.org> 2014-10-13 21:38:33 +0000;
fb9d955 (origin/RELEASE_2_14, RELEASE_2_14) Turned off evaluation of plot in beadsummary vignette where ggbio appears to be broken. by Mike Smith <mls40@cam.ac.uk> 2014-09-24 15:45:13 +0000;
c4c9a1b Fixed combine() method for ExpressionSetIllumina to combine protocolData slot by Mike Smith <mls40@cam.ac.uk> 2014-09-11 15:15:10 +0000;
035380d Due to a change in R, packages that use BiocStyle vignettes and the knitr vignette engine must explicitly Suggest knitr. by Dan Tenenbaum <dtenenba@fhcrc.org> 2014-06-15 19:18:18 +0000;
501cee4 Due to a change in R, packages that use BiocStyle vignettes and the knitr vignette engine must explicitly Suggest knitr. by Dan Tenenbaum <dtenenba@fhcrc.org> 2014-06-15 19:14:47 +0000;
aca3833 Commented out SweaveOpts line in vignette that seemed to prevent it being compiled. by Mike Smith <mls40@cam.ac.uk> 2014-04-15 13:42:24 +0000;
1d69b7f Updated idat reading section of vignette by Mike Smith <mls40@cam.ac.uk> 2014-04-15 10:36:05 +0000;
0afd1b6 Started to include idat reading example in vignette. Tidied several bugs in the idat reading code. by Mike Smith <mls40@cam.ac.uk> 2014-04-14 17:08:21 +0000;
330fa5c Second version bump after creating 2.14 release branch. by Dan Tenenbaum <dtenenba@fhcrc.org> 2014-04-11 21:21:21 +0000;
1127b3d Creating 2.14 release branch. by Dan Tenenbaum <dtenenba@fhcrc.org> 2014-04-11 21:17:46 +0000;
749cef2 First version bump prior to creating 2.14 branch. by Dan Tenenbaum <dtenenba@fhcrc.org> 2014-04-11 21:07:21 +0000;
dbfe6ee Add table of contents to vignette and a couple more examples by Mark Dunning <Mark.Dunning@cancer.org.uk> 2014-03-27 16:29:37 +0000;
773f60a Fix warning in annotation doc page by Mark Dunning <Mark.Dunning@cancer.org.uk> 2014-03-24 10:18:24 +0000;
4664736 Keeping code and manual file names consistent by Mike Smith <mls40@cam.ac.uk> 2014-03-24 09:58:56 +0000;
9414774 Keeping code and manual file names consistent by Mike Smith <mls40@cam.ac.uk> 2014-03-24 09:50:46 +0000;
481a817 Added preliminary report for reading expression idat files. Tidied up some of notes in the build/check report by Mike Smith <mls40@cam.ac.uk> 2014-03-24 09:46:47 +0000;
e84c86a tweak a few man pages by Mark Dunning <Mark.Dunning@cancer.org.uk> 2014-03-22 16:16:03 +0000;