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We assembled a set of 11 genomes of the same crop species with hifiasm version 0.19.8-r603. One of the 11, lineA, was an outlier in terms of overall assembly size. Particularly, 8Mb of the 5’-end of …
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Whats the ideal way to convert a NEAT genome to a tf graph?
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Large genome / metagenome could generate very huge assembly graph. We need to see how to load them properly.
Few ideas straight from the head:
* Switch to GFA parser from https://github.com/lh3/…
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@rowanz ,
I wanted to generate scene graphs for images not belonging to the Visual Genome dataset, using your model. Can I do this using the existing codebase? If yes, can you please guide me through…
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### Description of feature
As originally raised by @d4straub on [Slack](https://nfcore.slack.com/archives/CE6SDBX2A/p1684495819945059), a big issue in metagenomics/microbiome research is insufficie…
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Hi, I try to use get_blunted(pre-compile) on graphs which are compacted de Bruijn graph from Bifrost. My system is centos7 with gcc 9.4.
I test all the graphs which construct with 2 or 10 or 100 …
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there are three ways to do this.
* mapping based: map reads, call variants, build a variant call file (VCF), estimate ANI from VCF SNP calls.
* mapping based: create a new consensus genome based o…
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Hi!
Can CHOP be used to do the actual read mapping, or does it just create a fasta file that I e.g will need to index with BWA and then map reads to? If so, I assume my final alignments will be rel…
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**1. What were you trying to do?**
We want to find the snp and indels variation from the result vcf file BS_graph_call.vcf.
**2. What did you want to happen?**
We want to find the reason that w…
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Hi Dengfeng,
I am using purge_dups to purge a plant genome generated with ~37x coverage of pacbio hifi reads. Cytological estimates for this species put the put the genome size 850Mb, and kmer anal…