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Sage-Bionetworks
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GENIE-Sponsored-Projects
This repository contains processing code for GENIE sponsored projects used for creating cBioPortal files
MIT License
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[GEN-1612] Use 16.6-consortium for CRC 3.1
#144
rxu17
opened
1 week ago
2
[GEN-1563] Fix docker image instructions
#143
rxu17
closed
1 week ago
2
[GEN-1563] Lock down requirements.txt
#142
rxu17
closed
1 week ago
1
[GEN-1240] Add GRS toggle
#141
rxu17
opened
2 weeks ago
4
[GEN-1273, GEN-1275] Update PFS to different value
#140
thomasyu888
closed
7 months ago
1
GEN-1220 mapping file validation error
#139
xindiguo
closed
7 months ago
1
[GEN-1240] Remove GRS
#138
thomasyu888
closed
1 week ago
1
[GEN-1174] Don't use temporary retraction table
#137
thomasyu888
closed
6 months ago
1
[GEN-1222] Fix retraction and add RT back into the mix for NSCLC
#136
thomasyu888
closed
8 months ago
1
Update bpc_redcap_export_mapping.py
#135
Chelsea-Na
closed
8 months ago
1
Use cohort lists
#134
thomasyu888
closed
8 months ago
1
[GEN-1202] Update bpc_config.py
#133
Chelsea-Na
closed
8 months ago
2
[GEN-1200] Use "cohort_internal"
#132
thomasyu888
closed
8 months ago
1
Remove hard coded in CRC for treatment Rad
#131
thomasyu888
closed
8 months ago
1
Subset genomic regions file and upload to synapse
#130
thomasyu888
closed
9 months ago
1
[GEN-1083] use 15.4-release
#129
thomasyu888
closed
9 months ago
1
[GEN-1062] Use GRS instead of data dictionary for drug mapping
#128
thomasyu888
closed
9 months ago
1
[GEN-1004] Update bpc_redcap_export_mapping.py
#127
Chelsea-Na
closed
11 months ago
0
[GEN-951, GEN-505] Add in beginning of refactoring to adhere to SOLID principles
#126
thomasyu888
closed
1 week ago
1
[GEN-954] Remove GRS
#125
thomasyu888
closed
1 year ago
0
[GEN-949] Add in retraction table synids
#124
thomasyu888
closed
1 year ago
0
[GEN-950] Support NA values in AGE_AT_SEQUENCING
#123
thomasyu888
closed
1 year ago
0
[GEN-889] Updating validate_map.py
#122
Chelsea-Na
closed
1 year ago
0
[GEN-889] Updating validate_map.py
#121
Chelsea-Na
closed
1 year ago
1
Update README.md
#120
Chelsea-Na
closed
1 year ago
0
[GEN-848, GEN-860] Add in ECOG values
#119
thomasyu888
closed
1 year ago
0
[GEN-860] Updating to use encoding=ISO-8859-1
#118
Chelsea-Na
closed
1 year ago
1
[GEN-778] Add timeline treatment to NSCLC
#117
thomasyu888
closed
1 year ago
0
[GEN-766, GEN-870] Retract using release files and use consortium release
#116
thomasyu888
closed
1 year ago
0
[GEN-746] timeline performance status RESULT column must be integers
#115
thomasyu888
closed
1 year ago
0
[GEN-628] Update PFS status variables
#114
thomasyu888
closed
1 year ago
0
[GEN-460] Staging runs should upload to a different Synapse folder
#113
thomasyu888
closed
1 year ago
0
[GEN-507] Add in performance status variable
#112
thomasyu888
closed
1 year ago
0
[GEN-384] Include data sv in bpc releases
#111
thomasyu888
closed
1 year ago
0
[GEN-335] sequence file drop duplicates
#110
thomasyu888
closed
1 year ago
0
[GEN-94] Add initial commit to get start date
#109
thomasyu888
closed
2 years ago
0
[GEN-286] Make sure meta seg file is named correctly
#108
thomasyu888
closed
2 years ago
0
[GEN-264] Rename the seg file to be more in line with other cbioportal files
#107
thomasyu888
closed
2 years ago
0
[GEN-261] retract samples from clinical survival treatment file
#106
thomasyu888
closed
2 years ago
0
[GEN-90] Add nextflow wf
#105
thomasyu888
closed
2 years ago
0
Change AGE_AT_SEQUENCING to integer
#104
thomasyu888
closed
2 years ago
0
Update main genie release used to 12.0-public
#103
thomasyu888
closed
2 years ago
0
[IBCDPE-261] Make sure blank values are filled with NA
#102
thomasyu888
closed
2 years ago
0
Wipe existing files from cBioPortal release directory on Synapse before loading new files
#101
hhunterzinck
opened
2 years ago
0
remove gh-action
#100
thomasyu888
closed
2 years ago
0
rad therapy dataset name and mapping table updates
#99
hhunterzinck
closed
2 years ago
0
Modify radiation therapy dataset name
#98
hhunterzinck
closed
2 years ago
0
sor col name reference
#97
hhunterzinck
closed
2 years ago
0
Modify mapping validation script to read SOR columns from Synapse table reference
#96
hhunterzinck
closed
2 years ago
0
function per file
#95
hhunterzinck
closed
1 year ago
0
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