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Hello, I am trying to generate the input for SIGNALS using hmmcopy and counthaps; we have single-end data and we have realized that our data doesn't work with your software, specifically for the count…
shngk updated
7 months ago
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I have some curious observation that maybe you can help me with. I am using STITCH to impute ~1600 fish samples at variable levels of coverage (0.2x to 3x). These samples are F2 individuals from a com…
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Dear author
I would like to consult where the color is inconsistent in the picture, (the changing contig),What is the generating file that lets me know which contig it is?
 [sedwards@holy7c24101 msaconverter]$ msac…
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3.11.1 (v3.11.1:a7a450f84a, Dec 6 2022, 15:24:06) [Clang 13.0.0 (clang-1300.0.29.30)]
CPython
macOS-12.7.6-x86_64-i386-64bit
1.84
### Expected behaviour
seqform genbank
##The warning line…
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I'm trying to phase a vcf with 983 exome samples.
The command I ran -
```
/mnt/exome/Softwares/shapeit4/bin/shapeit4.2 --input MOD_hg19.vcf.gz --map /mnt/exome/Softwares/shapeit4/maps/chr"$chr"…
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HI
HI
I have been running Stitch on a 5838 sample dataset that is an 11 generation drosophila pedigree, which all originate from 4 founder individuals . While 66% of the samples have < 2% mis…
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This seems to happen to a certain extent for the 25 samples I am working with, but here is a specific case:
I am haplotagging a bunch of ~ 14 kb reads. I know the sample in question is heterozygous…
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Hello Dr. Jana Sperschnieder,
I am a student researcher at Oregon State University in the laboratory of Joey Spatafora. I am working on the assembly of the dikaryotic ectomycorrhizal fungus, Rhizop…
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Hi,
Due to the nature of our system we are unable to acquire the parents of our sequenced individual, we sequencing a lot of children data.
What should I do to build hap-kmer using these children…