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I am currently conducting Whole Genome Bisulfite Sequencing (WGBS) data analysis using Bismark and plan to utilize a soft-masked genome, where all repetitive and low-complexity regions are marked with…
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# Issue Report
## Please describe the issue:
I am working on epigenetic analysis for bacterial samples using Oxford Nanopore sequencing (FLO-MIN114), and I’m transitioning from Tombo to Dorado for…
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Hi,
This is an amazing tool! Based on the paper, it is strong in SV detection.
Will it have a wider range of applications? animals, plants? ; )
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Hello,
Is the WASP mapping pipeline suitable/recommended to be used on WGS data? I have followed some suggestions here to split some of the steps by chromosome since the files are large. However, f…
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Good afternoon,
I am assembling fish genomes de novo using hifi data and have run into a few issues for a few of my target species (all diploid);
first, to better understand the size and heterozyg…
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Are there any recommended methods to obtain non-modified samples for sequencing (e.g. whole-genome amplification, or something else?)?
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Issue by @MaxUlysse, moved from SciLifeLab#666
- [ ] [ExpansionHunter](https://github.com/Illumina/ExpansionHunter) for estimating repeat sizes
- [ ] [QDNAseq](https://github.com/ccagc/QDNAseq) CN…
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Hi,
I am working on annotating large datasets, specifically Whole Genome Sequencing (WGS) VCF files, using the Variant Effect Predictor (VEP). However, the annotation process is taking significantl…
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Hi Juliana, Thank you for sharing your genetic QC pipeline—it has been incredibly helpful. I have a question regarding whole-genome sequencing (WGS) data. Due to its large size, it's often to separate…
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I was wondering if there was any upper limit (either computationally or experimentally) in terms of the size of the genome(s) to run olivar on. I'm trying to design a primer set for multiple organisms…