-
Hi DSS developers.
Thanks so much for the package. We have started using DSS to find DML/DMR for our RRBS data obtained from normal, primary and relapse sarcoma human tumors.
For now I am running …
-
It makes sense to figure out whether we have enough pairs for every treatment type or not, and to determine how biased our datasets are by treatment types.
-
* input: [input.txt](https://github.com/genome-nexus/annotation-tools/files/5859860/input.txt)
* Intermediate files: `annotation-tools` intermediate files I must add the .txt at the end or github …
-
FilterMutectCalls failed with
```
java.lang.IllegalArgumentException: beta must be greater than 0 but got -87566.7500301585
```
"this error only comes after the first pass of filtermutectCalls comple…
-
The current `as.list()` for the `DataLongitudinal` object uses a magic number to represent the censoring threshold if no threshold is provided. Given STAN has no representation for nulls this might be…
-
Listed are the HTAN manuscripts we should curate for cBioPortal:
- [x] -An omic and multidimensional spatial atlas from serial biopsies of an evolving metastatic breast cancer (https://pubmed.ncbi.…
-
I am currently working with a series of human samples in which the fusion between BCL2 (chr18 ~63 Mbp) and IGH@ (chr14 ~105 Mbp) is recurring and pertinent. It appears however that every fusion report…
-
@Mike-Garratt - things to do after our meeting on 14th Aug 2024
- [ ] cause of death analysis @itchyshin
- [ ] related fig above @itchyshin
- [ ] meta-analysis of healthspan @itchyshin
- [ ] …
-
I have a simple interface in R-shiny that allows a user to select top 10 genes with mutations in his data list and plot a lollipop plot. But, every query input of the gene the lollipop functions run t…
-
To start sorting out the disease vs phenotype business, we suggest the following plan:
1. Update our HPO - Mondo mapping by running the OAK lexmatch matching pipeline to HPO.
2. Implement a review…