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Thanks for the great package!
I would like to run MatrixEQTL on only samples that are heterozygous for the respective snp of interest.
For this I input a vcf file in which all homozygous snps ar…
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GO:0060818 inactivation of paternal X chromosome by genomic imprinting is the single child of GO:0060817 inactivation of paternal X chromosome, and has no annotations.
The reason for obsoletion is…
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Hi, I am running numbat with mouse snRNAseq data generated by Takara SMART-Seq Stranded Kit. I did analysis on 52 nuclei and got the following error message. Can anyone help to check? The data that I…
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**Describe the issue:**
I am observing some weird genotypes calls, when I call variants from RNA-seq data. I've followed the nicely written tutorial, the only thing I changed was a minimum coverage o…
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Hi,
I was wondering if there is a way to run the nextNEOpi pipeline just from the pVACseq command? I want to run it first with standard and then relaxed filtering. I changed the setting in params.c…
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## Submitting team
Exploring Agent, Service Provider (Andrew Su)
## SME
Colleagues at the Rady Children's Institute for Genomic Medicine
**Jennifer Friedman, MD**
Clinical Professor Neurosci…
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I am reviewing some function predictions, and have a function predictions for swt1 to transcription elongation.
There are a number of issues here:
The predictions have some weighting …
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Hello, I am having some issues in performing the run_numbat() function once finished the initial SNP calling/phasing. This is the output after running it using the v 1.3.0 Docker file pulled and run u…
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Hi Oliver,
I am trying to construct GeRS using the method you described in your paper _Imputed gene expression risk scores: a functionally informed component of polygenic risk_ published on _**Huma…
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Hi Felix,
I download a few samples from the implication paper (mouse non allelic specific) and I manage to reproduce all the steps in your pipeline, except for the last one. This command:
./filt…