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Hi Jake,
Quick question: You have four categories (diagnostic, predictive, predisposing, prognostic). Do you by any chance have any plans to classify the corpus with whether a relationship in a sente…
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Hi Viraj,
I was wondering if you could please help with the following warning messages. I'm trying to run amplified_intervals.py on CNV locations determined by readDepth (alt.dat) and I get the fol…
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Hi! I tried to load the "sig_genes.txt" file from MutSig with
`mutsig mutsig
[1] ""
```
and
`oncoplot(maf = comb_maf, colors = col, mutsig = mutsig, mutsigQval = 0.1, ...`
returns
> Followin…
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Add a button (the first one) `ALL CURATED GENES` to download genes. Let's include:
- HUGO SYMBOL
- ENTREZ GENE ID
- ENSEMBL TRANSCRIPT ID
- REFSEQ TRANSCRIPT ID
- IS A TUMOR SUPPRESSOR GENE
-…
jjgao updated
5 years ago
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Hi,
I am receiving the following error during my run:
`probabilistic2020 --log-level=INFO oncogene -c 1.5 -n 10000 -b data//snvboxGenes.bed -m output_fl/simulated_summary/chasm_sim_maf1.txt …
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**What is the proposed name of the new schema?**
1. I suggest changing the name of the module target.json to probe.json.
2. Rename 'reagent_name' to 'probe_label' this should be required
3. Renam…
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For both Mutated Genes and CNA Genes table, add a toggle option to show only Cancer Genes (the OncoKB list), on by default.
@zhx828 maybe do some mockup first.
jjgao updated
5 years ago
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Hey Sigve,
Testing the most recent codebase (normal dockerized install). I updated the `dev` image and downloaded the most recent data bundle, running an example and getting this errror:
```
py…
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Is it possible to have a function to keep only those ggboxplots that have a significant comparison when using facet.by ?
For example, if a have a list of genes from a given pathway and want to comp…
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When I query, "What are the drugs that target coma"? I get
_Your question has been interpreted and is restated as follows:
What drugs target proteins associated with Coma?
Please ensure that t…