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morinlab
/
GAMBLR
Set of standardized functions to operate with genomic data
https://morinlab.github.io/GAMBLR/
MIT License
3
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2
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`get_cn_states()` output is misleading for missing samples
#207
Kdreval
closed
1 year ago
9
`gene_to_region()` is not working
#206
Kdreval
closed
1 year ago
3
Error thrown by prettyGeneCloud example
#205
rdmorin
closed
1 year ago
2
Based on the description in the tutorial, what is the purpose of collate_results?
#204
rdmorin
closed
1 year ago
2
maf_to_custom_track returns error
#203
vladimirsouza
closed
1 year ago
2
Strelka2 support in get_ssm_by_region appears to be broken
#202
rdmorin
closed
11 months ago
8
Add small missing info to the readme
#201
vladimirsouza
closed
1 year ago
3
Examples (vignettes and package docs) using bundled data that has been relocated to GAMBLR.data now fails
#200
mattssca
closed
1 year ago
4
Fix error in get_ssm_by_samples function
#199
vladimirsouza
closed
1 year ago
2
Fix error in gene_to_region function
#198
vladimirsouza
closed
1 year ago
18
Fix error in gene_to_region function
#197
vladimirsouza
closed
1 year ago
0
Website Improvements and Other Quality of Life Improvements
#196
mattssca
closed
1 year ago
3
Website Updates
#195
mattssca
closed
1 year ago
0
Extend CNV tool support in `assign_cn_to_ssm`
#194
Kdreval
opened
1 year ago
0
`grch37_lymphoma_genes_bed` is corrupted
#193
Kdreval
closed
1 year ago
1
GAMBLR Website and cBioPortal
#192
mattssca
closed
1 year ago
2
Add IGV functionality
#191
rdmorin
closed
1 year ago
0
`get_gambl_metadata` is broken for normals
#190
lkhilton
closed
6 months ago
4
`get_ssm_by_regions` only returns 5 columns
#189
lkhilton
closed
1 year ago
10
Can we change the logic in `get_manta_sv()`?
#188
Kdreval
closed
1 year ago
1
GAMBLR Function Examples
#187
mattssca
closed
1 year ago
2
prettyOncoplot hideSideBarplot does nothing
#186
rdmorin
closed
6 months ago
1
collate_results fails for capture when join_with_full_metadata = TRUE
#185
rdmorin
closed
1 year ago
0
GAMBLR Improvements - truncated lines in manual, posted issues, README, new portal.R functions.
#184
mattssca
closed
1 year ago
1
Using GAMBLR with no remote/GAMBL access requires set up
#183
ninaliuta
closed
6 months ago
1
Fix for `get_coding_ssm_status` function
#182
Kdreval
closed
1 year ago
1
Set get_coding_ssm_status priorities straight
#181
Kdreval
closed
1 year ago
1
nloptr error
#180
rdmorin
closed
1 year ago
6
Unhelpful error when nonexistent patient_id is provided to get_coding_ssm
#179
rdmorin
closed
1 year ago
2
Documentation errors during install
#178
rdmorin
closed
1 year ago
2
Implement GitHub actions for GAMBLR installation and build
#177
Kdreval
closed
1 year ago
2
Bundled data descriptions, argument descriptions, and portal.R stuff
#176
mattssca
closed
1 year ago
1
Function examples should not extend over 100 characters per line
#175
mattssca
closed
1 year ago
0
DESCRIPTIONS says to use lazy data but it is not set up properly
#174
Kdreval
closed
1 year ago
2
Many functions have non-documented arguments
#173
Kdreval
closed
1 year ago
4
Bundled data objects are not documented
#172
Kdreval
closed
1 year ago
2
devtools::check() fails on inappropriate use of non-exported functions
#171
Kdreval
closed
1 year ago
1
devtools::check() fails on license
#170
Kdreval
closed
1 year ago
1
devtools::check fails on documentation issue
#169
Kdreval
closed
1 year ago
3
Create GitHub Actions to re-build the package on each update
#168
Kdreval
closed
1 year ago
1
bug fix: prettyForestplot bugs
#167
Kdreval
closed
1 year ago
1
prettyForestplot is broken
#166
Kdreval
closed
1 year ago
1
prettyOncoplot updated to be able to handle input genes and minMutationPercent
#165
faranehym
closed
1 year ago
2
GAMBLR Improvements and Bugfixes
#164
mattssca
closed
1 year ago
1
Can't specify a gene list and minMutationPercent together in prettyOncoplot
#162
faranehym
closed
1 year ago
3
sample_id parameter should be renamed to this_sample_id or these_sample_ids
#161
mattssca
closed
1 year ago
0
Conflicting function (margin) from randomForest and ggplot2.
#160
mattssca
closed
1 year ago
4
Remote support for get_sample_cn_segments is broken
#159
mattssca
closed
1 year ago
0
get_gambl_metadata looks in the wrong place for a case set file
#158
rdmorin
opened
1 year ago
2
Update Readme
#157
rdmorin
closed
1 year ago
0
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