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Dear tigermeat,
TIGER is wonderful project,I use it in openutau.
Could I ask how you train the English svs model? I am a Graduate student,have trained chinese svs model before, and I researched …
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Hello
I have tumor sample data, which we sequenced using RRMS adaptive sampling, but due to certain reasons, we don't have data on the normal tissue of the same individual. Therefore, this may sound…
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Hi Colby,
We are using Speedseq 0.1.2 to process the whole genome For ex: NA12877. We are getting many calls with QUAL = 0. Can we just filter them from the vcf file after processing through speeds…
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In the AmpliconClassifier documentation is detailed, that only cyclic amplicons can be classified into BFB or ecDNAs.
However, in my analysis, I noticed that some were classified as Complex, but the…
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Hi,
I want to use your HGSVC graph for my own analysis. In your ftp website, I saw many different graphs. As following:
1) https://cgl.gi.ucsc.edu/data/giraffe/mapping/graphs/for-NA19240/hgsv…
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Hi Erik,
I am doing some precision/recall analysis on a simulated set of 13 samples where each "sample" is a random mutant of a real-life plant chromosome. I introduced exactly 200 SVs per sample an…
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What steps will reproduce the problem?
1. install all software listed in README by Synaptic.
2. start apkinspector and parse launcher2
3. get some console error output and nothing displayed in apk…
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Hi @XiaoTaoWang ,
Thank you for the tool to identify SVs using hic data. I used Hi-C data of rats using HiC-Pro, and I was able to get three different resolution, 5K, 10K and 50K with cool format. Th…
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I want to assess your models in our work and compare it with our in-house models. I got the tissue segmentation working with your instructions on the GitHub page, but the QC part does not work. I prov…
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Hi Claire,
Please, while running the genotyping_SV pipeline, I could not find the script "01_scripts/fasta_extract_flankingregions_claire.py" in the command "python3 ../01_scripts/fasta_extract_flan…