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Huntsmanlab
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utanos
Utilities for doing analysis on shallow WGS data
https://huntsmanlab.github.io/utanos/
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Bug fixes
#79
dingma0
closed
3 weeks ago
1
Evaluate labelSeg to see if it would be useful to include in Utanos
#78
genomaxx
opened
1 month ago
0
PlotAnnotationBars - allow multiple column of annotations, add parameter for color scheme
#77
dingma0
closed
3 weeks ago
0
SHRD - Don't export functions unless absolutely necessary
#76
brandenjlynch
opened
1 month ago
0
Remove hardcoded genome build in RCNDiversityPlot
#75
dingma0
closed
3 weeks ago
1
SHRD - Refactor tests to run properly via testthat
#74
brandenjlynch
opened
1 month ago
0
SHRD - Make SHRD robust to other genomes
#73
brandenjlynch
opened
1 month ago
0
SHRD - Refactor PrepForLevelsInitialization to not require intermediate file
#72
brandenjlynch
opened
1 month ago
0
Update authors field for open source code taken from elsewhere
#71
genomaxx
opened
1 month ago
0
Final SHRD code, plus unrelated bug fixes from Max and Ding
#70
brandenjlynch
closed
1 month ago
3
Added functions for finding best fit rascal solutions
#69
dingma0
closed
2 months ago
1
Address miscellaneous code warnings from devtools::check
#68
genomaxx
opened
2 months ago
0
Signaturedocs
#67
genomaxx
closed
2 months ago
0
Added functions for finding best fit rascal solutions
#66
dingma0
closed
2 months ago
9
Build an MVP website for utanos
#65
genomaxx
closed
2 months ago
0
CN-Diversity investigation and rCN to aCN scaling workflow updates
#64
genomaxx
closed
3 months ago
0
Clean-up and update the Roxygen documentation for functions covered in the Copy-Number Diversity vignette
#63
genomaxx
closed
3 months ago
0
Remove extraneous/unused code
#62
brandenjlynch
opened
3 months ago
1
Refactor cn-summary-workflow vignette into a broader CN-Diversity investigation workflow
#61
genomaxx
closed
3 months ago
4
Vignette for QC and Filtering of QDNAseq CN objects.
#60
genomaxx
closed
3 months ago
0
Additional QC metrics to look at for evaluating sample quality
#59
genomaxx
opened
3 months ago
0
toy data missing for cn-summary-workflow.md vignette
#58
mdeea
closed
3 months ago
2
Create a function to do bin-filtering that is input agnostic
#57
genomaxx
closed
3 months ago
0
Fix RelativeCNSegmentsPlot() function
#56
genomaxx
closed
3 months ago
1
Add functions for relative-copy-number based signature modelling and generation
#55
genomaxx
closed
4 months ago
0
Documentation and clean-up for cn-signatures code
#54
genomaxx
closed
2 months ago
0
Debug rascal's segment plots function to find source of slowdown
#53
genomaxx
closed
3 months ago
1
Add component-wise wasserstein distance evalution/plotting function
#52
genomaxx
closed
3 months ago
0
Add functions for relative-copy-number based signature modelling and generation
#51
genomaxx
closed
4 months ago
3
Sample quality evaluation and plotting functions, NAMESPACE updates, and documentation additions
#50
genomaxx
closed
4 months ago
0
Nirupama mods integration
#49
genomaxx
closed
4 months ago
1
Update documentation for mixture model plotting functions.
#48
genomaxx
closed
7 months ago
2
Mixture model plotting functions now online!
#47
genomaxx
closed
9 months ago
2
Plot cn with genes
#46
brandenjlynch
closed
10 months ago
3
shallowHRD vignette writing
#45
genomaxx
opened
10 months ago
0
Relative copy-number profile quality evaluation - automated MVP
#44
genomaxx
closed
4 months ago
3
Add visualization options during cn-feature modelling
#43
genomaxx
closed
9 months ago
1
Create tests of utility functions
#42
genomaxx
opened
11 months ago
0
shallowHRD code integration to main package code
#41
genomaxx
closed
1 month ago
5
BestRelativeProfile with only one sample from QDNA or one sample from WX creates an error
#40
SameerShankar
opened
1 year ago
3
Merge bug fixes from summary_cn_plot_grch38 branch.
#39
brandenjlynch
closed
1 year ago
1
create-new-cn-signatures vignette improvements
#38
cvasq24
opened
1 year ago
2
cn-summary-workflow vignette improvements
#37
cvasq24
closed
3 months ago
0
Maxwell personal
#36
genomaxx
closed
1 year ago
0
Maxwell personal
#35
genomaxx
closed
1 year ago
0
Maxwell personal
#34
genomaxx
closed
1 year ago
0
Maxwell personal
#33
genomaxx
closed
1 year ago
0
Maxwell personal
#32
genomaxx
closed
1 year ago
0
Maxwell personal
#31
genomaxx
closed
1 year ago
1
Sameer branch
#30
SameerShankar
closed
1 year ago
0
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