-
Hi
I've just been going over the demo visualisation and noticed that the links within the Linear View: Annotations section has links to genes/repeats under the "Name" column which do not lead to th…
-
Hello,
I am attempting to use SNPGenie to analyze synonymous and non-synonymous SNPs in a VCF file. I used gffread to generate a gtf file from my gff3 file and then used grep to select only the ex…
-
Thank you so much for making such a handy package to extract the latest gene information from the HGNC! I'm a novice in R and data analysis, so this has been a wonderful way to get the newest details …
-
The [search_phenotype_association_sets](https://github.com/ga4gh/ga4gh-client/blob/master/ga4gh/client/client.py#L749-L758) method (and presumably other methods that use the `ga4gh.client.protocol` m…
-
-
It would be great to have a method to use a trained spatial Markov chain to predict the next n states for a set of geometries.
```
sm = pysal.Spatial_Markov(data, weights, fixed = True, k = 7)
predi…
-
## Describe the issue
VEP performed incorrect pHGVS annotation for the variant `NM_173660.5:c.1124_1127dup (rs606231128)` .
VEP annotated the variant as `NP_775931.3:p.Ala377ProfsTer31` when the cor…
-
Hello,
I get the following error when trying to download the harmonized TCGA data:
```
> GDCdownload(query)
Downloading data for project TCGA-BRCA
GDCdownload will download....
Starting to a…
-
Hi, I'm currently creating an exon only spliced graph (NOT haplotype specific) using `vg rna`, and wanted to know if there was a way to make the IDs (contigs) the chromosome number instead of the tran…
-
Hello,
I recently ran into some problems with TCGAbiolinks.
I used the TCGAbiolinks package in april 2018 to download the bladder cancer set and ran some analysis. Unfortunately I don't know which v…