hyginn
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55a0d18a66
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patch a problem where jsonlite:: oversimplifies from single entries to array, rather than list.
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2020-10-13 22:38:47 +10:00 |
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hyginn
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d2fffdf0b8
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Add code for shared protein data import
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2020-10-13 22:37:31 +10:00 |
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hyginn
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5524832a75
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bugfix: wrong iterator
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2020-10-13 21:45:14 +10:00 |
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hyginn
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a50688e0d0
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bugfix: jsonlite::fromJSON() chokes on a blank
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2020-10-13 20:35:45 +10:00 |
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hyginn
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804e3a73b7
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bugfix: import all taxonomy IDs as integer
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2020-10-13 20:33:04 +10:00 |
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hyginn
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0541612e0b
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Bugfixes
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2020-10-13 20:27:56 +10:00 |
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hyginn
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307aad556e
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remove duplicate annotation
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2020-10-13 20:26:17 +10:00 |
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hyginn
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4d071cf8d5
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Add code and utility functions for database export of protein annotations to JSON - towards sharing annotations on the Student Wiki Public page
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2020-10-13 16:08:35 +10:00 |
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hyginn
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3bee83495f
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add cex examples
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2020-10-12 09:18:10 +10:00 |
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hyginn
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0c395a1c83
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style
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2020-10-12 09:17:09 +10:00 |
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hyginn
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c064b34000
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add sealKey()
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2020-10-12 09:16:52 +10:00 |
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hyginn
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a590e6d9c7
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New plotting reference and associated integrated dataset
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2020-10-06 23:37:29 +10:00 |
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hyginn
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31c519be9f
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Bugfix: called the wrong function on ENSPsel in l. 220
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2020-10-04 14:11:13 +10:00 |
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hyginn
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285c0db8a5
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BUGFIX: variable was tested before being loaded
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2020-10-03 08:57:03 +10:00 |
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hyginn
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e0ff45fe94
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TBC
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2020-10-02 21:15:34 +10:00 |
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hyginn
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efb52f636d
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specify package when attaching BLOSUM62 - don't assume Biostrings has been loaded.
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2020-10-02 20:59:29 +10:00 |
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hyginn
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152d01273f
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data in ./myScripts/
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2020-10-02 18:50:36 +10:00 |
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hyginn
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3173aec119
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srsly: ./myScripts/ !
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2020-10-02 18:38:01 +10:00 |
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hyginn
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62cb8e42c1
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put data in ./myScripts/
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2020-10-02 18:32:29 +10:00 |
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hyginn
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5ff4b3f7cb
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File should be in ./myScripts/...
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2020-10-02 18:31:06 +10:00 |
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hyginn
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e974fbdb10
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add jsonlite:: to fromjJSON() in code sample
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2020-10-02 18:27:59 +10:00 |
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hyginn
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d38092f08a
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mRNA for Mutation-effect IA: controls
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2020-10-01 18:19:59 +10:00 |
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hyginn
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8839248362
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Reorganized proportional plots into a "further reading" section; added nested-box, and sankey plot visualization of proportions. Introduced plotly.
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2020-10-01 18:18:51 +10:00 |
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hyginn
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8a5c5b3961
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return taxID as name of return value
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2020-10-01 11:18:08 +10:00 |
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hyginn
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39417c8e60
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./myScripts/.myProfile.R needs to be sourced after!
.utilities.R to ensure utility functions are available.
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2020-10-01 03:04:35 +10:00 |
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hyginn
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9e77d948e9
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return ChimeraX response invisibly and provide example of using the data for a plot
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2020-09-29 14:12:11 +10:00 |
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hyginn
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12e3de439f
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add overlooked jsonlite:: prefix to fromJson()
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2020-09-28 18:00:45 +10:00 |
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hyginn
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12213b73a4
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Update to student-edited file locations
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2020-09-28 17:49:45 +10:00 |
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hyginn
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744e762dc2
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New script to demonstarte remote scripting of ChimeraX
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2020-09-27 23:40:27 +10:00 |
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hyginn
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df3dbb0fb6
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add CX() command for ChimeraX rempote control from R-scripts.
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2020-09-27 23:40:01 +10:00 |
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hyginn
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0fb02b1f2f
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ignore the myScripts folder from now on
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2020-09-27 00:08:31 +10:00 |
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hyginn
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389efcdfab
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Contents for a sample .Rmd page
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2020-09-27 00:07:14 +10:00 |
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hyginn
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777cabcb20
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Deprecate iTol and use taxize:: instead. Rewrite of tip re-ordering.
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2020-09-26 21:39:18 +10:00 |
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hyginn
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68b00c83e8
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add TOC
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2020-09-26 18:22:32 +10:00 |
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hyginn
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b9ac373fce
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Update - file locations and authorization of phylip apps on Mac.
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2020-09-26 18:21:17 +10:00 |
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hyginn
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85b7353646
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ignore assignment produced data/APSEStreeRproml.rds
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2020-09-26 18:20:33 +10:00 |
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hyginn
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12725799e1
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Maintenance
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2020-09-26 16:45:29 +10:00 |
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hyginn
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16513dc488
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ignore assignment file data/APSESphyloSet.mfa
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2020-09-26 16:45:10 +10:00 |
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hyginn
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866a1c0e8f
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maintenance, update file locations, minor bugs
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2020-09-26 01:07:49 +10:00 |
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hyginn
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092494d9de
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update validateFASTA() logic to accommodate blanks in spacers
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2020-09-26 00:43:10 +10:00 |
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hyginn
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169ca58b92
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Bugfix: q -> Q
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2020-09-25 21:51:04 +10:00 |
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hyginn
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091880d205
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Update script location
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2020-09-25 21:50:42 +10:00 |
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hyginn
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092daaef97
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Fix makeProteinDB.R location
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2020-09-25 21:28:17 +10:00 |
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hyginn
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126f956ea7
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update TOC
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2020-09-25 21:07:25 +10:00 |
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hyginn
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85d53ae2ee
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New AA colouring scheme - with better separation and transparent colours for overlapping plots. prcomp() analysis of amino acid similarity.
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2020-09-25 21:06:24 +10:00 |
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hyginn
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069d8136e3
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Clarifications, and better color palettes for correlations
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2020-09-25 18:51:38 +10:00 |
|
hyginn
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b42adac3f3
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minor updates
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2020-09-25 15:24:51 +10:00 |
|
hyginn
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abe30a5fb6
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Maintenance
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2020-09-25 13:20:10 +10:00 |
|
hyginn
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5a3bbc31c6
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TOC, and filename typo
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2020-09-25 12:03:56 +10:00 |
|
hyginn
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404fb05c79
|
minor maintenance
|
2020-09-25 12:01:08 +10:00 |
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