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hyginn 804e3a73b7 bugfix: import all taxonomy IDs as integer
2020-10-13 20:33:04 +10:00
data
remove duplicate annotation
2020-10-13 20:26:17 +10:00
myScripts
2020 updates and maintenance
2020-09-16 16:32:51 +10:00
scripts
bugfix: import all taxonomy IDs as integer
2020-10-13 20:33:04 +10:00
tests
New unit: RPR-Unit_tests, with sample test file and tests directory
2017-10-15 18:46:42 -04:00
.gitignore
ignore the myScripts folder from now on
2020-09-27 00:08:31 +10:00
.myProfile.R
update process for moving .myProfile.R
2020-09-21 14:54:30 +10:00
.notes
cleanup
2019-01-07 17:51:50 +10:00
.Rprofile
BUGFIX: variable was tested before being loaded
2020-10-03 08:57:03 +10:00
.tmp.R
New workflow for Introduction
2020-09-19 22:31:06 +10:00
.utilities.R
add sealKey()
2020-10-12 09:16:52 +10:00
ABC-addSACCE_APSESproteins.R
Added and updated learning units
2017-09-12 16:09:20 -04:00
ABC-units.R
2020 updates - deactivate for maintenance
2020-09-18 21:56:30 +10:00
ABC-units.Rproj
Install files and folders
2017-08-18 22:04:01 +02:00
BIN-ALI-BLAST.R
Update script location
2020-09-25 21:50:42 +10:00
BIN-ALI-Dotplot.R
2020 updates - deactivate for maintenance
2020-09-18 21:56:30 +10:00
BIN-ALI-MSA.R
specify package when attaching BLOSUM62 - don't assume Biostrings has been loaded.
2020-10-02 20:59:29 +10:00
BIN-ALI-Optimal_sequence_alignment.R
srsly: ./myScripts/ !
2020-10-02 18:38:01 +10:00
BIN-ALI-Similarity.R
specify package when attaching BLOSUM62 - don't assume Biostrings has been loaded.
2020-10-02 20:59:29 +10:00
BIN-Data_integration.R
Updates to UniProtIDmap, and address httr/curl initialization bug
2020-09-25 02:27:42 +10:00
BIN-FUNC-Domain_annotation.R
Add code and utility functions for database export of protein annotations to JSON - towards sharing annotations on the Student Wiki Public page
2020-10-13 16:08:35 +10:00
BIN-FUNC-Semantic_similarity.R
Maintenance
2020-09-25 13:20:10 +10:00
BIN-MYSPE.R
Reorganized proportional plots into a "further reading" section; added nested-box, and sankey plot visualization of proportions. Introduced plotly.
2020-10-01 18:18:51 +10:00
BIN-PHYLO-Data_preparation.R
Maintenance
2020-09-26 16:45:29 +10:00
BIN-PHYLO-Tree_analysis.R
Deprecate iTol and use taxize:: instead. Rewrite of tip re-ordering.
2020-09-26 21:39:18 +10:00
BIN-PHYLO-Tree_building.R
add TOC
2020-09-26 18:22:32 +10:00
BIN-PPI-Analysis.R
style
2020-10-12 09:17:09 +10:00
BIN-SEQA-Composition.R
Maintenance. Use AACOLS.
2020-09-25 01:50:07 +10:00
BIN-Sequence.R
Maintenace, and add a Fibonacci-sequence example
2020-09-23 23:21:46 +10:00
BIN-Storing_data.R
add overlooked jsonlite:: prefix to fromJson()
2020-09-28 18:00:45 +10:00
FND-Genetic_code.R
Maintenance
2020-09-24 08:55:14 +10:00
FND-MAT-Graphs_and_networks.R
Maintenance
2020-09-23 13:00:38 +10:00
FND-STA-Information_theory.R
2020 updates - deactivate for maintenance
2020-09-18 21:56:30 +10:00
FND-STA-Probability_distribution.R
Update PPI-Analysis assets and code
2020-09-23 20:47:26 +10:00
FND-STA-Significance.R
Maintenance and sample solutions
2020-09-23 06:07:40 +10:00
functionTemplate.R
added a non-executing block for test code
2017-10-28 23:07:52 -04:00
plottingReference.R
add cex examples
2020-10-12 09:18:10 +10:00
README.md
2020 updates - deactivate for maintenance
2020-09-18 21:56:30 +10:00
RPR-Biostrings.R
Maintenance
2020-09-24 20:41:10 +10:00
RPR-ChimeraX_remote.R
return ChimeraX response invisibly and provide example of using the data for a plot
2020-09-29 14:12:11 +10:00
RPR-eUtils_XML.R
TOC, and filename typo
2020-09-25 12:03:56 +10:00
RPR-FASTA.R
update validateFASTA() logic to accommodate blanks in spacers
2020-09-26 00:43:10 +10:00
RPR-Genetic_code_optimality.R
Maintenance
2020-09-24 22:15:28 +10:00
RPR-GEO2R.R
Clarifications, and better color palettes for correlations
2020-09-25 18:51:38 +10:00
RPR-Introduction.R
New workflow for Introduction
2020-09-19 22:31:06 +10:00
RPR-PROSITE_POST.R
bugfix in dbFetchPrositeFeatures(); add return of actual motif sequence; stylistic updates
2020-09-25 11:29:28 +10:00
RPR-RegEx.R
2020 Maintenance
2020-09-22 21:02:13 +10:00
RPR-SX-PDB.R
stylisitc updates
2020-09-22 13:02:29 +10:00
RPR-UniProt_GET.R
updates; vectorized dbFetchUniProtSeq()
2020-09-25 10:47:41 +10:00
RPR-Unit_testing.R
Discuss code-local testing
2020-09-25 00:25:15 +10:00
scriptTemplate.R
Use requireNamespace(), <package>::<function>() idiom,
2019-01-08 17:11:25 +10:00

README.md

ABC-units

A Bioinformatics Course: R modules for learning units

Follow the instructions in the learning unit to install your local copy of this R-project.

Description
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Readme 7.6 MiB
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