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A separate issue from the results in #64 is that 0.5-0.8% of markers could not be mapped from hg19 to hg38. While I think some percentage will be skipped anyway. Do you have any suggestions to reduce …
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### Description of the bug
Hi Developers,
I'm trying to run the Sarek implemented ASCAT for CNV analysis on WES data. On the nfcore Sarek website, it's suggested to follow 5 steps, as specified in…
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Dear professor,
We conducted an analysis using MTAG. Overall, the correlation between the effect sizes from MTAG and the original GWAS is quite good, r=0.67; however, we found that the effect sizes o…
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Hi,
I use locusZoom occasionally to brows some GWAS data and create plots, which I'd say, they are nicely generated compare to amount of time a user spends. This is just a suggestion not a big prob…
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Hi Christophe! Thank you for making this tool available.
I have two questions about it: Did you calculate the Grantham distance for the loci that Pierini F & Lenz TL did not analyze (or did not inclu…
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Hi, using my bw file I was able to do these
# read bw file
`bigWigs = read_coldata("NIST8398_20240612.hard-filtered.baf.bw", build = "hg38")`
#Region to plot
`oct4_loci = "chr6:31125776-31144…
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Hello,
I recently ran Susie fine mapping using tensoQTL's susie.map function. There were several loci where when I looked at the Manhattan plots for the QTL, it seemed like they should have had so…
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Follow-up task of https://github.com/ome/ome-common-java/pull/1, activating `mvn findbugs:check` in Travis requires to fix 30 bugs in the code base
```
[INFO] --- findbugs-maven-plugin:3.0.4:check (…
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The below line of example code in the README.md lists
````
import torch
from bpnetlite.io import extract_loci
from bpnetlite.io import LocusGenerator
from bpnetlite import BPNet
````
Howe…
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The `--loci` command line argument takes a space-separated list of locus names. This means that it *must* be followed by another command line option so that argparse knows when to stop looking for loc…