Jay Leung

Genome Build Compatibility Issues

5

Hi, I am experiencing the same issue as Saya #257 I ran the command: ``` perl vcf2maf.pl --input-vcf input.vcf --output-maf output.maf --ref-fasta /home/usr/Documents/Genomes/NCBI_RefSeq_GRCh38/GRCh38.p13_RefSeq_NCBI.fa.gz --vep-path ~/ensembl-vep --ncbi-build GRCh38 ``` But I...

fgsea directionality

2

Hello! Thanks for the amazing workshop, it was very useful. I was following the https://hectorrdb.github.io/bioc2021trajectories/articles/TGFB.html for my own single cell analysis, and ran fgsea with the Wald's statistics from the...

### Prerequisites + [X] Have you read [Feedback](https://guangchuangyu.github.io/reactomepa/#feedback) and follow the [guide](https://guangchuangyu.github.io/2016/07/how-to-bug-author/)? * [X] make sure your are using the latest release version * [X] read the [documents](https://guangchuangyu.github.io/reactomepa/documentation/) * [X]...

Hi, I am using Seurat for my single cell analysis and so exported the loom file with Seurat UMAP embeddings using `loom