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AlexsLemonade
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OpenPBTA-analysis
The analysis repository for the Open Pediatric Brain Tumor Atlas Project
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Updated analysis: molecular-subtyping-embryonal sample selection
#1110
kgaonkar6
closed
3 years ago
1
Figures README number of palettes - is it 5 or 6?
#1109
sjspielman
closed
3 years ago
0
Typo in 'Adamantinomatous Craniopharyngioma' tables
#1108
afarrel
closed
3 years ago
2
BS_0TCRV9AC needs recode to normal
#1107
jharenza
closed
3 years ago
1
Visualize chromothripsis results with breakpoint data
#1106
LauraEgolf
closed
3 years ago
2
Independent samples update
#1105
runjin326
closed
3 years ago
0
Expression plots
#1104
komalsrathi
closed
3 years ago
1
Updated analysis: independent rna sample list selection
#1103
kgaonkar6
opened
3 years ago
5
Updated analysis: amplification in XY chr
#1102
kgaonkar6
closed
3 years ago
1
Updated deep loss CNV calls
#1101
kgaonkar6
closed
3 years ago
2
Fitting 8 known CNS signatures to data, 3/n (3/3?)
#1100
sjspielman
closed
3 years ago
6
Updated analysis: CNV deep deletions
#1099
kgaonkar6
closed
3 years ago
1
Visualize chromothripsis frequency by histology
#1098
LauraEgolf
closed
3 years ago
1
Add GNT back in LGAT subtyping module
#1097
kgaonkar6
closed
3 years ago
2
fix DNA-RNA mapping using parent_aliquot_id
#1096
komalsrathi
closed
3 years ago
6
Add fusion within TP53 loss annotation
#1095
kgaonkar6
closed
3 years ago
7
Updated analysis: Add fusion as TP53 loss
#1094
kgaonkar6
closed
3 years ago
1
Updated analysis: pathology feedback for BS_H1XPVS9A needs update
#1093
kgaonkar6
closed
3 years ago
1
Hotspots maf addition ( as optional) update for oncoplots
#1092
kgaonkar6
closed
3 years ago
5
GHA build push docker
#1091
kgaonkar6
closed
3 years ago
0
GHA docker build
#1090
kgaonkar6
closed
3 years ago
0
Updated analysis: Oncoplot SNV calls
#1089
kgaonkar6
closed
3 years ago
5
Consensus seg update for oncoplot
#1088
kgaonkar6
closed
3 years ago
4
Updated analysis: Oncoplot CNV calls
#1087
kgaonkar6
closed
3 years ago
1
Updated analysis: add glialneuronal tumors back to LGAT subtyping
#1086
jharenza
closed
3 years ago
2
Updated analysis: BS_5BMNK8SY assigned 2 MB subtypes
#1085
kgaonkar6
closed
3 years ago
5
Compile pathology_free_text_diagnosis subtypes
#1084
kgaonkar6
closed
3 years ago
7
Run ShatterSeek and classify chromothripsis regions as high/low confidence
#1083
LauraEgolf
closed
3 years ago
0
Revert meningioma pathology-free-text-diagnosis update
#1082
kgaonkar6
closed
3 years ago
0
Updated analysis: Mol-subtyping using pathology_free_text_diagnosis reported subtype (Meningioma)
#1081
kgaonkar6
closed
3 years ago
1
V2 release
#1080
jharenza
closed
3 years ago
1
v19 histologies file has extra columns
#1079
jharenza
closed
3 years ago
1
add Ganglioglioma int dx
#1078
kgaonkar6
closed
3 years ago
3
#959 HGG update hotspots
#1077
kgaonkar6
closed
3 years ago
2
#959 Lgat update hotspots
#1076
kgaonkar6
closed
3 years ago
1
#959 Cranio update hotspots
#1075
kgaonkar6
closed
3 years ago
0
Updated analysis: LGAT integrated dx for ganglioglioma
#1074
jharenza
closed
3 years ago
1
#959 Tp53 classifier rerun for subtyping
#1073
kgaonkar6
closed
3 years ago
4
Updated analysis: tp53-nf1-score with hotspot mafs and updated consensus cnv calls
#1072
kgaonkar6
closed
3 years ago
1
#959 Part1: Update subtyping with hotspots maf (Code update only)
#1071
kgaonkar6
closed
3 years ago
0
Remove irrelevant file that snuck in with #961
#1070
jaclyn-taroni
closed
3 years ago
0
Rename module: sv-analysis -> chromothripsis
#1069
LauraEgolf
closed
3 years ago
0
EPN subtyping update EZIP based subtyping
#1068
kgaonkar6
closed
3 years ago
4
Part2: Freec as default and neutral NA update to focal-cn-file-preparation
#1067
kgaonkar6
closed
3 years ago
0
Part1: Freec as default and neutral NA
#1066
kgaonkar6
closed
3 years ago
1
Add atypical choroid plexus papilloma to harmonized diagnosis
#1065
jaclyn-taroni
closed
3 years ago
0
Checkout bed_to_segfile.R changes from #987
#1064
jaclyn-taroni
closed
3 years ago
0
Leverage reciprocal_exists for handling reciprocal fusions in OncoPrints
#1063
jaclyn-taroni
closed
3 years ago
2
Update other-MAPK LGAT subtypes
#1062
kgaonkar6
closed
3 years ago
1
Proposed Analysis: Compile molecular-subtype+pathology and clinical feedback + pathology_free_text_diagnosis subtypes to a file
#1061
kgaonkar6
closed
3 years ago
2
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