loomr.git
22 months agoCleanup and reorganize code
Paul Hoffman [Wed, 13 Dec 2017 00:05:12 +0000 (19:05 -0500)]
Cleanup and reorganize code

22 months agoAdd subset function
Paul Hoffman [Tue, 12 Dec 2017 23:57:18 +0000 (18:57 -0500)]
Add subset function

22 months agoBegan support for selective-chunking in apply
Paul Hoffman [Tue, 12 Dec 2017 23:01:02 +0000 (18:01 -0500)]
Began support for selective-chunking in apply

22 months agoSlight refactoring
Paul Hoffman [Tue, 12 Dec 2017 18:58:26 +0000 (13:58 -0500)]
Slight refactoring

22 months agoadd ability to extract a dataframe of multiple row_attr or col_attr elements
Andrew Butler [Tue, 12 Dec 2017 15:29:26 +0000 (10:29 -0500)]
add ability to extract a dataframe of multiple row_attr or col_attr elements

23 months agoFixes to batch iteration. Allow skipping of validation due to issues with large datasets
Paul Hoffman [Thu, 16 Nov 2017 00:17:24 +0000 (19:17 -0500)]
Fixes to batch iteration. Allow skipping of validation due to issues with large datasets

23 months agoSyntax error
Paul Hoffman [Wed, 15 Nov 2017 21:21:09 +0000 (16:21 -0500)]
Syntax error

23 months agoBeginnings of add cells method
Paul Hoffman [Tue, 14 Nov 2017 22:56:41 +0000 (17:56 -0500)]
Beginnings of add cells method

23 months agoSyntax error
Paul Hoffman [Tue, 14 Nov 2017 20:00:35 +0000 (15:00 -0500)]
Syntax error

23 months agoMerge branch 'master' of github.com:mojaveazure/loomR
Paul Hoffman [Tue, 14 Nov 2017 19:19:54 +0000 (14:19 -0500)]
Merge branch 'master' of github.com:mojaveazure/loomR

23 months agoUse characters rather than 'versions' to store version information
Paul Hoffman [Tue, 14 Nov 2017 15:24:37 +0000 (10:24 -0500)]
Use characters rather than 'versions' to store version information

23 months agoAdd method to clean up object once garbage collected
Paul Hoffman [Thu, 9 Nov 2017 23:04:00 +0000 (18:04 -0500)]
Add method to clean up object once garbage collected

23 months agoUpdate README.md
Paul Hoffman [Thu, 9 Nov 2017 20:16:37 +0000 (15:16 -0500)]
Update README.md

23 months agoUpdate documentation
Paul Hoffman [Thu, 9 Nov 2017 19:29:28 +0000 (14:29 -0500)]
Update documentation

23 months agoFixed issues with chunking and iterating
Paul Hoffman [Thu, 9 Nov 2017 18:27:23 +0000 (13:27 -0500)]
Fixed issues with chunking and iterating

23 months agoUpdate issues with chunk iteration
Paul Hoffman [Thu, 9 Nov 2017 17:27:05 +0000 (12:27 -0500)]
Update issues with chunk iteration

23 months agoFix issue with adding attributes
Paul Hoffman [Thu, 9 Nov 2017 17:19:38 +0000 (12:19 -0500)]
Fix issue with adding attributes

23 months agoAdd overwrite to add layer and add atribute
Paul Hoffman [Thu, 9 Nov 2017 17:14:25 +0000 (12:14 -0500)]
Add overwrite to add layer and add atribute

23 months agochange margin to 1 for genes and 2 for cells
Paul Hoffman [Thu, 9 Nov 2017 16:31:24 +0000 (11:31 -0500)]
change margin to 1 for genes and 2 for cells

23 months agoupdate readme
Paul Hoffman [Wed, 8 Nov 2017 21:41:52 +0000 (16:41 -0500)]
update readme

23 months agoCleanup namespace
Paul Hoffman [Wed, 8 Nov 2017 13:54:52 +0000 (08:54 -0500)]
Cleanup namespace

23 months agoClean code
Paul Hoffman [Wed, 8 Nov 2017 00:58:07 +0000 (19:58 -0500)]
Clean code

23 months agoFixes and stuff
Paul Hoffman [Wed, 8 Nov 2017 00:56:09 +0000 (19:56 -0500)]
Fixes and stuff

23 months agoCheck for read-only mode, start add.cells/add.columns
Paul Hoffman [Tue, 7 Nov 2017 00:06:08 +0000 (19:06 -0500)]
Check for read-only mode, start add.cells/add.columns

23 months agoUpdate documentation
Paul Hoffman [Mon, 6 Nov 2017 19:40:55 +0000 (14:40 -0500)]
Update documentation

23 months agoGet apply working (I think), fix some stuff with map
Paul Hoffman [Mon, 6 Nov 2017 19:26:09 +0000 (14:26 -0500)]
Get apply working (I think), fix some stuff with map

23 months agoExpand apply, update documentation
Paul Hoffman [Fri, 3 Nov 2017 21:43:15 +0000 (17:43 -0400)]
Expand apply, update documentation

23 months agoFinished map and made it an R6 method
Paul Hoffman [Fri, 3 Nov 2017 20:30:54 +0000 (16:30 -0400)]
Finished map and made it an R6 method
Currently debating on whether or not to keep it as an S3 generic/method

23 months agoFIx issues where iterators and itertools weren't loading properly
Paul Hoffman [Fri, 3 Nov 2017 16:02:19 +0000 (12:02 -0400)]
FIx issues where iterators and itertools weren't loading properly

23 months agoFixed install issue while retaining S4
Paul Hoffman [Thu, 2 Nov 2017 21:06:50 +0000 (17:06 -0400)]
Fixed install issue while retaining S4

23 months agoRename file
Paul Hoffman [Thu, 2 Nov 2017 20:00:26 +0000 (16:00 -0400)]
Rename file

23 months agoAllow S4 methods to be set for loom
Paul Hoffman [Thu, 2 Nov 2017 19:58:17 +0000 (15:58 -0400)]
Allow S4 methods to be set for loom

23 months agoMap designed for R6(ish)
Paul Hoffman [Thu, 2 Nov 2017 19:57:47 +0000 (15:57 -0400)]
Map designed for R6(ish)

23 months agoUpdate README
Paul Hoffman [Wed, 1 Nov 2017 19:24:13 +0000 (15:24 -0400)]
Update README

23 months agoClean code, update documentation
Paul Hoffman [Wed, 1 Nov 2017 18:33:36 +0000 (14:33 -0400)]
Clean code, update documentation

23 months agoFix issues with create, further progress on batching
Paul Hoffman [Wed, 1 Nov 2017 17:22:17 +0000 (13:22 -0400)]
Fix issues with create, further progress on batching

23 months agoMerge branch 'master' of github.com:mojaveazure/loomR
Paul Hoffman [Tue, 31 Oct 2017 23:24:51 +0000 (19:24 -0400)]
Merge branch 'master' of github.com:mojaveazure/loomR

23 months agoBegun implementation of batch.scan
Paul Hoffman [Tue, 31 Oct 2017 23:24:32 +0000 (19:24 -0400)]
Begun implementation of batch.scan

23 months agofirst shell for CreateLoomFromSeurat
Rahul Satija [Tue, 31 Oct 2017 23:02:30 +0000 (19:02 -0400)]
first shell for CreateLoomFromSeurat

23 months agoFinish layer adding
Paul Hoffman [Tue, 31 Oct 2017 22:24:26 +0000 (18:24 -0400)]
Finish layer adding

23 months agoUpdate how layers are added to a loom object
Paul Hoffman [Tue, 31 Oct 2017 22:22:19 +0000 (18:22 -0400)]
Update how layers are added to a loom object

23 months agoFix issue where the H5D for '/matrix' wasn't being stored
Paul Hoffman [Tue, 31 Oct 2017 19:57:43 +0000 (15:57 -0400)]
Fix issue where the H5D for '/matrix' wasn't being stored

23 months agoAllow method chaining
Paul Hoffman [Tue, 31 Oct 2017 18:21:52 +0000 (14:21 -0400)]
Allow method chaining

23 months agoUpdate documentation
Paul Hoffman [Tue, 31 Oct 2017 14:59:50 +0000 (10:59 -0400)]
Update documentation

23 months agocreate works
Paul Hoffman [Mon, 30 Oct 2017 21:58:23 +0000 (17:58 -0400)]
create works

23 months agoConnect works!
Paul Hoffman [Mon, 30 Oct 2017 21:23:42 +0000 (17:23 -0400)]
Connect works!

23 months agoExpand documentation
Paul Hoffman [Mon, 30 Oct 2017 21:02:09 +0000 (17:02 -0400)]
Expand documentation

23 months agoUpdate gitignore
Paul Hoffman [Mon, 30 Oct 2017 21:01:33 +0000 (17:01 -0400)]
Update gitignore

23 months agoUpdate documentation
Paul Hoffman [Mon, 30 Oct 2017 20:47:30 +0000 (16:47 -0400)]
Update documentation

23 months agoExpand methods
Paul Hoffman [Mon, 30 Oct 2017 20:47:23 +0000 (16:47 -0400)]
Expand methods

23 months agoHave Roxygen do more with autodocumentation
Paul Hoffman [Mon, 30 Oct 2017 20:47:02 +0000 (16:47 -0400)]
Have Roxygen do more with autodocumentation

23 months agoUpdate .gitignore
Paul Hoffman [Mon, 30 Oct 2017 20:46:22 +0000 (16:46 -0400)]
Update .gitignore

23 months agoUpdates to the initialize method and add functionality to other methods
Paul Hoffman [Mon, 30 Oct 2017 18:22:03 +0000 (14:22 -0400)]
Updates to the initialize method and add functionality to other methods

23 months agoAdd to create and start framework support framework for loom in R6
Paul Hoffman [Fri, 27 Oct 2017 22:45:46 +0000 (18:45 -0400)]
Add to create and start framework support framework for loom in R6

23 months agoUpdate documentation
Paul Hoffman [Fri, 27 Oct 2017 22:45:22 +0000 (18:45 -0400)]
Update documentation

23 months agoAdd some stuff to create
Paul Hoffman [Fri, 27 Oct 2017 21:52:39 +0000 (17:52 -0400)]
Add some stuff to create

23 months agoRe-export validateLoom and start create function
Paul Hoffman [Fri, 27 Oct 2017 20:40:04 +0000 (16:40 -0400)]
Re-export validateLoom and start create function

23 months agoUpdate README
Paul Hoffman [Fri, 27 Oct 2017 20:39:38 +0000 (16:39 -0400)]
Update README

23 months agoInital version of loom in R6
Paul Hoffman [Fri, 27 Oct 2017 20:07:43 +0000 (16:07 -0400)]
Inital version of loom in R6

23 months agoUpdates to documentation
Paul Hoffman [Fri, 27 Oct 2017 18:23:00 +0000 (14:23 -0400)]
Updates to documentation

23 months agoAdd a README
Paul Hoffman [Thu, 26 Oct 2017 20:53:06 +0000 (16:53 -0400)]
Add a README

23 months agoUpdate .gitignore
Paul Hoffman [Thu, 26 Oct 2017 19:41:25 +0000 (15:41 -0400)]
Update .gitignore

23 months agoUpdate documentation, flesh out validateLoom
Paul Hoffman [Thu, 26 Oct 2017 19:27:04 +0000 (15:27 -0400)]
Update documentation, flesh out validateLoom

23 months agoMerge branch 'master' of github.com:mojaveazure/loomR
Paul Hoffman [Mon, 23 Oct 2017 22:38:00 +0000 (18:38 -0400)]
Merge branch 'master' of github.com:mojaveazure/loomR

23 months agoAdd intial validation function
Paul Hoffman [Mon, 23 Oct 2017 22:36:39 +0000 (18:36 -0400)]
Add intial validation function

2 years agoadded first versions of connect and map functions
Rahul Satija [Sat, 21 Oct 2017 20:23:57 +0000 (16:23 -0400)]
added first versions of connect and map functions

2 years agoInitialization function
Paul Hoffman [Fri, 20 Oct 2017 22:05:32 +0000 (18:05 -0400)]
Initialization function

2 years agoMore explicit \eimports
Paul Hoffman [Fri, 20 Oct 2017 22:05:17 +0000 (18:05 -0400)]
More explicit \eimports

2 years agoMinor fixes
Paul Hoffman [Fri, 20 Oct 2017 21:27:46 +0000 (17:27 -0400)]
Minor fixes

2 years agoInitial commit
Paul Hoffman [Fri, 20 Oct 2017 21:24:59 +0000 (17:24 -0400)]
Initial commit