Matthijs Pon
Matthijs Pon
Removes the `--af_esp` argument, which is deprecated in VEP 110, allowing maf2maf to run w/ VEP 110.
It is currently possible to load two generic stable IDs that only differ in case (e.g., `hello` and `HellO`). When either of the profiles are fetched, e.g., for the plots...
Also, I think even if the data was loaded, it couldn't be shown in the 'structural variants' tab due to it clashing with the existing Annotation column (API pulling from...
Example (1400% alteration frequency in CCDC6 genie): https://genie.cbioportal.org/comparison/alterations?sessionId=5e9e305ae4b0ff7ef5fe074a I've been looking into this and it seems this issue arises in the backend somewhere around service/src/main/java/org/cbioportal/service/util/AlterationEnrichmentUtil.java Spikes in alteration frequency for...
If you have multiple generic assays loaded under the same 'generic_assay_type', they aggregate into a single tab. However, when selecting between the different datasets in the ResultsView comparison view, the...
Follow up to https://github.com/cBioPortal/cbioportal-core/pull/7 As the ENTITY_STABLE_IDs for Generic Assays are now more strictly validated, we propose to simply hide the stable ID if the `NAME` property is given, instead...
A while back, the entity_stable_id validation was made [more strict](https://github.com/cBioPortal/cbioportal/pull/10365). Now only alphanumeric characters, dots, underscores and dashes are 'allowed'. (`A-Za-z0-9._-`) Due to this, [gmb_cptac_2021](https://github.com/cBioPortal/datahub/tree/master/public/gbm_cptac_2021) can no longer be loaded...
# What? Add mutational signature contribution scores (published data) and mutational matrix (generated from data_mutations.txt) using SigProfilerMatrixGenerator (v1.2.15) to pancan_pcawg_2020. Includes README describing transformation. Depends on this front-end PR: https://github.com/cBioPortal/cbioportal-frontend/pull/4540...
(Tested in v6.0.6) When you explore a study with only clinical data, a POST request gets made with the following payload: `{"molecularProfileIds":[]}`, which fails. The issue is not present in...