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morinlab
/
GAMBLR
Set of standardized functions to operate with genomic data
https://morinlab.github.io/GAMBLR/
MIT License
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sync config with GAMBLR.results update
#258
rdmorin
opened
1 month ago
0
NAMESPACE ignores updates to child repos
#257
Kdreval
opened
2 months ago
0
QC filtering function
#256
rdmorin
opened
4 months ago
0
point DESCRIPTION to patched GAMBLR.viz
#255
rdmorin
closed
5 months ago
0
sync main installation to stable tag 1.1.1
#254
rdmorin
closed
5 months ago
0
bug fix: fix readme
#253
Kdreval
closed
5 months ago
0
bug fix: restore logo
#252
Kdreval
closed
5 months ago
0
Calculate PGA per chromosome; updates to prettyRainfallPlot
#251
kmcoyle
closed
6 months ago
2
Transforming GAMBLR to a universe
#250
Kdreval
closed
5 months ago
9
ssm_to_proteinpaint function needed
#249
rdmorin
opened
9 months ago
7
id_ease returns non-existing sample IDs in `these_samples` object.
#248
mattssca
closed
6 months ago
2
annotate_sv is reporting some SV with more than one annotation
#247
rdmorin
closed
8 months ago
6
region_to_gene throws an error in some cases
#246
rdmorin
closed
7 months ago
5
Error in `get_gene_cn_and_expression` and `get_gene_expression`
#244
vladimirsouza
closed
3 months ago
2
`get_cn_states` gets error when `all_cytobands = TRUE`
#243
vladimirsouza
opened
11 months ago
0
Vsouza add prefix gamblr.data
#242
vladimirsouza
closed
10 months ago
0
get_ssm_by_region should deal with chr-prefixes automatically based on the selected projection.
#241
mattssca
closed
6 months ago
3
Hot-fixes
#240
mattssca
closed
7 months ago
0
New lymphgen feature extraction and visualization
#239
rdmorin
closed
7 months ago
1
Kdreval fixes
#238
Kdreval
closed
7 months ago
1
get_gene_expression doesn't work if genes are provided as factors
#237
rdmorin
opened
11 months ago
1
Kdreval fixes in get_lymphgen functionality
#236
Kdreval
closed
11 months ago
0
`get_ssm_by_region` dies if specified region has no mutations
#235
lkhilton
opened
11 months ago
2
Create a test suite for the GAMBLR functionality
#234
Kdreval
opened
11 months ago
1
Houman lm annotate maf triplet
#233
HoumanLM
closed
11 months ago
0
Decouple the GAMBLR codebase into thematic packages
#232
Kdreval
closed
8 months ago
0
Separate the R scripts into one file/function
#231
Kdreval
closed
8 months ago
0
Remove remote set-up from vignettes
#230
vladimirsouza
closed
11 months ago
0
rehome plotting functions and helpers to viz.R
#229
rdmorin
closed
1 year ago
1
Vignettes containing function calls that conflict with other libraries
#228
rdmorin
opened
1 year ago
0
Axis labels in plots generated by ssm vignette have excessively large fonts
#227
rdmorin
closed
6 months ago
2
Updated get_manta_sv doesn't work for remote users
#226
rdmorin
opened
1 year ago
1
bug in assign_cn_to_ssm example in vignette
#225
rdmorin
closed
6 months ago
0
get_sample_cn_segments has non-standard parameter naming
#224
rdmorin
closed
6 months ago
1
Specify version of GAMBLR dependencies in package DESCRIPTION
#223
mattssca
opened
1 year ago
0
annotate MAF with triplet context
#222
rdmorin
closed
6 months ago
3
Houman lm maf to custom track
#221
HoumanLM
closed
1 year ago
4
Update aSHM heatmap functionality
#220
lkhilton
closed
11 months ago
6
Still finding references to `grch37_ashm_regions` throughout
#219
lkhilton
closed
1 year ago
6
Change `gene_to_region` and add `get_cnv_and_ssm_status`
#218
vladimirsouza
closed
12 months ago
1
get_manta_sv, id_ease, website & documentation improvements + minor hot-fixes
#217
mattssca
closed
1 year ago
1
maf_to_custom_track TO DO list
#216
rdmorin
opened
1 year ago
0
browser_hub.R updates
#215
rdmorin
opened
1 year ago
0
Fix column names of get_cn_states output
#214
vladimirsouza
closed
1 year ago
0
`gene_to_region` function changes input order of genes
#213
vladimirsouza
closed
9 months ago
3
Update get_cn_states documentation
#212
vladimirsouza
closed
1 year ago
0
hot-fixes: Add IGV functionality (rmorin-dev)
#211
mattssca
closed
1 year ago
7
fix get_cn_states output for missing samples
#210
vladimirsouza
closed
1 year ago
4
some issues with vignettes
#209
rdmorin
closed
11 months ago
1
New wrapper function to produce the SSM and CN joint matrix
#208
Kdreval
closed
8 months ago
1
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