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I am using a hifiasm-derived graph to map to chm13 with minigraph. Is there some reason why 0 reads would map to chm13? I am using human sequences and have aligned to reference many, many times.
``…
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Hi,
I want to ask if DeepTrio provides an option to generate denovo variants.
I ran the tool using exact files provided in the tutorial, receive 3 vcf and 3gvcf but that's about it. How can I get…
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Hi,
I have a hemizygous genome and I have detected SVs on the main reference genome using dysgu. I wanted to confirm that the filtering parameters I am using would make sense in this case, and also…
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Hi,
I'm tring to test Deepvariant in my own panel data and set --regins to the interest regin, but something happend in my output. I provided reference gene hg19 and index it with samtools index, a…
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This issue will collect all feedback submitted via the feedback form at the end of each tutorial
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Results have been [aggregated](https://nbviewer.jupyter.org/github/bebatut/galaxy-training-m…
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This issue will document the rolling results.
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The first sneak peak is **all** [437 Nanopore isolates](https://github.com/mbhall88/drprg-paper/issues/1) and 400 Illumina isolates (selected at…
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If I'm using a vcf as my -SVinputFile, but want to use -snvIndelFiles, would I just use the same vcf for both inputs?
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*************edited November 20***************
**TRACKER**
BA.2.86: -C6541T,A7842, C8293T, G8393A (new query thx to @aviczhl2 )
JN.1 QUERY: C18894T, T15756A, A7842, -C6541T
XDD Query : C6541T…
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```
RStudio server 2021.09.2 Build 382
knitr 1.37
```
I have this code in a RMD document which works until I add third footnote: https://www.ensembl.org/Gallus_gallus
---
title: "Untitled…
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I tried to install from github repo, but got the below error (I omitted the earlier install outputs as I assume they wont be relevant for the error below).
I am installing on linux within condaenv w…