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Dear @readmanchiu,
The [Variant Call Format Specification v4.4. and v4.5](https://samtools.github.io/hts-specs/VCFv4.5.pdf) were released recently. One of the major changes is support for (short) t…
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Hi, I am trying to figure out how to estimate the total length of tandem repeats found in a sequence and I can't figure out which metric to use. I have several genomes I would like to analyse, I would…
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## Problem Overview
1. The sequence length is 470,685,350 base pairs (bp).
2. The running time exceeds 38…
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Hi,
I have assembled the mitogenomes of 8 Microctonus aethiopoides using Flye in meta mode on ONT data. The mitogenomes were extracted from the assembly using the GetOrganelle tool. According to the …
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Hello,
Thank you for developing the tool.
If I am expecting a repeat may or may not start with the `--regions regions.bed`, but will extend beyond the genomic regions that are defined within `--…
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In tandem repeats, it's often important to know whether reads fully span a tandem repeat in order to know whether the ALT or REF call is actually correct. I'd expect it would be useful to have an an…
jzook updated
7 years ago
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Here is an example:
The coverage depths of A, B, B' and C are even, s…
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Hello @jiadong324,
Thank you for developing such an excellent tool. I have used SVision to detect tandem repeat variations in the HG002 sample with the GRCh38 reference. I employed the default comm…
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Review articles with lists:
* https://www.sciencedirect.com/science/article/pii/S0002929721000951?via%3Dihub
* https://www.nature.com/articles/s41580-021-00382-6
Websites with lists:
* TR-gnomAD's li…
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Hi there,
I am interested in this amazing tool. I am wondering whether there are any limitations regarding the length of each tandem repeat. Specifically, I would like to detect a 67-bp tandem repe…