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### System information
- Ubuntu 22.04
- 1.0.5
- Cloud
### Description of the Issue
The `format` command with `--generate-metadata` crashes for a filename that doesn't contain `GCST`, even if the …
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Good afternoon,
I am assembling fish genomes de novo using hifi data and have run into a few issues for a few of my target species (all diploid);
first, to better understand the size and heterozyg…
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Good afternoon! I recently ran into an issue where there is pattern discrepancy between runs with sparseOptimization set to TRUE versus FALSE. The code I ran and the output is below. With sparseOptimi…
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In Splice Site Prediction (SPL) task，you say you used SpliceAI dataset. But when I downloaded the data, I found that many of the bases were N, and many of the sequences were labeled with all zeros. T…
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### Contact Details
ks164@duke.edu
### Scripts
10a-gwas_aar.sh
### What happened?
Running fastGWA on twin (MZ and DZ) data gives the following error:
Estimating the genetic variance (Vg) by fa…
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As our work on this package progress, this issue can help us enumerate possible future features of the package depending on the time and interests of contributors. Some features will be needed for th…
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Dear Prof. Zhang:
I met errors when performed GWAS using IIIVmrMLM as shown below:
`[1] "Single-environment analysis for Pheno1 begins"`
`[1] "Kinship matrix caculating"`
`Error in t(uu) %*% …
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From the vignette + documentation, it's not entirely clear to me what the difference between distributed = "genome-wide" and distributed = "single-cell" is. What is changing? I note that for the Seura…
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MVP data:
[MVP](https://www.ncbi.nlm.nih.gov/projects/gap/cgi-bin/study.cgi?study_id=phs002453.v1.p1) is an ongoing prospective cohort study and mega‐biobank in the Department of Veterans Affairs Heal…
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Hi!
We are using IGV.js to plot CNV estimates genome-wide - we are plotting WIGs for this purpose. We noticed, however, that (unlike the Desktop version) IGV.js does some form of aggregation of the W…