Minigraph-Cactus需要至少一个染色体级别的输入组装作为参考骨架,并且通常所有输入组装的质量和有用性都会随着其质量和完整性的提高而增加。我们认为这对于大多数物种来说不会成为瓶颈,因为由于测序技术和组装工具的进步,很快就会为许多物种产生大量的参考或甚至“端粒到端粒”的质量基因组。在目前的工作中,我们量化了参考...
Hi, I got this error > nextflow run WarrenLab/minigraph-cactus-nf -profile lorencm --seqFile ../seqFile.txt --reference AU --binariesMode singularit cactus-minigraph: error: unrecognized arguments: --mgCores 13 Thank you in advance, Michal
泛基因组请问一下Minigraph-Cactus的脚本中提到了,所生成的三种文件,其中 clip graph: This is the default graph. Stretches of sequence >10kb that were not aligned to the underlying SV/minigraph are removed. "Dangling" nodes (ie that don't have an edge on each side) that aren't on the refere...
HPRC graphs can be downloaded from https://s3-us-west-2.amazonaws.com/human-pangenomics/index.html?prefix=pangenomes/freeze/freeze1/minigraph-cactus/. Consult the Data Portal for explanations of the different files: https://github.com/human-pangenomics/hpp_pangenome_resources/. Variant calls ...
Here we present the Minigraph-Cactus pangenome pipeline, which creates pangenomes directly from whole-genome alignments, and demonstrate its ability to scale to 90 human haplotypes from the Human Pangenome Reference Consortium. The method builds graphs containing all forms of genetic variation while ...
Hello, I have been trying to genotype structural variants from a graph made with minigraph-cactus, by mapping short reads with vg giraffe, then using vg pack and vg call to get a vcf. This runs without error, but the output is sometimes ...