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[GLIMPSE2] Potential bug in the reported phased genotypes (GT field). Should be fixed in the testing version and will be updated in the new release as soon as possible.
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The [VCF 4.4 spec](https://samtools.github.io/hts-specs/VCFv4.4.pdf) now allows for an initial symbol indicating the phasing of the first allele. For example, `/0/1` is a valid genotype. At present, v…
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## Description
an artifact with Phasing is immune to artifact container.
**Reproduction**
Sentient artifact with Phasing enabled is immune to artifact container.
**Additional context**
had a …
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Hello, I'm trying to use nmrpy to handle an array of solid state T1rho data. While the original data has been phased using topspin, I'm struggling to get the spectra phased using the module. Is there…
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Hi,
I have PacBIO Hifi reads (~4kb) with very 200-300x coverage, as well as 30x PCR-free WGS data for around 30 normal human samples. I'm particularly interested in one region around 400kb long, th…
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I have nanopore long-reads from tumor (tumor only)
I also have SNP/indel variant calls from the same sample from illumina in both germline (normal) and tumor data
I want to try and get phasing inf…
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### Description of feature
This was added in WhatsHap 2.3 (2024-05-05), might be useful for SV analysis? @J35P312
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Hi,
I'm new to working with SHAPEIT.
I came across an article titled: "A General Approach for Haplotype Phasing Across the Full Spectrum of Relatedness" (2014) and would like to recreate the same f…
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Hi developer of `phasius`
Is it possible to use VCF files as input for `phasius` since most phasing software produces phased `.vcf` file. Also, tt is relatively time consuming to run `whatshap halpot…
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I'm using `whatshap phase` to phase variants called from Nanopore sequencing data. I feel confused by some of the phasing results as the split reads do not appear to be consistent with the phased SNPs…