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I would like to evaluate the performance of different variant callers based on the BAM file.
I tried samtools, but with samtools, I do not get information on strand bias, etc. Therefore, I want to …
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Currently TornadoVM does not dump IR Graph when system properties such as `-Djdk.graal.Dump`, `-Djdk.graal.DumpOnError` and so on are provided.
Usage of such properties will allow the use of an I…
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igv.js is a awesome tools.
We want to distinguish reads with variation by color just like the IGV desktop.
Now I can get the reads information by `browser.on('trackclick', function (track, popove…
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Hi there,
I apologize for the naive question I'm about to ask, but I've been struggling with this for a week and would appreciate some help. I created a custom gene index using a FASTA file of fusi…
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Hello IGV team,
I am currently analyzing amplicons from an insect genomic DNA sample edited with CRISPR/Cas9. I am aware IGV offers insertion and deletion data by selecting a specific base pair of…
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I have a sample with BCL2-IGH verified by FISH. There are lots of reads to support viewed by IGV. the pictuers is as follows. I am running with default parameters，and BCL2,IGH is included in csv fil…
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There's some info about gCNV output files and a sample of what a track might look like here (sample is on IGV web): `https://github.com/igvteam/igv.js/pull/1055` (sample reproduced below).
![image]…
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Dear dash team,
Would it be possible to work towards updating the igv browser included in bio-dash?
The current browser is pretty dated and doesnt support certain features, like squished view of…
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I have been trying to run IGVtools count offline.
It requires a genome file as input, which I have created with IGV, in accordance with the documentation:
https://github.com/igvteam/igv/wiki/Downl…
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Hi Dave,
about the "similar tools" section on this page, you may want to add "pgzip" ?
https://github.com/vasi/pixz
in genomics, the indexing compressor pgzip has been used for around 15 years.…