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Hi Vini,
I get the following error from DAS Tool:
Analyzing assembly
Skipping gene prediction
using protein fasta file: output/annotation/prodigal/cobinning/cobinning_proteins.faa
An…
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For large eukaryotic genomes, the file overlap.paf may be very large. I think, VeChat can be optimized in two ways to deal with this:
1) Instead of making overlap.paf, it can make overlap.paf.gz . Th…
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1.)
ecoli.contigs N50 4631892 L50 1
scaffolds N50 133353 L50 13
N50 is the contig for which 50% of the assembly is covered
L50 is the number of contigs in which 50% of the assembly is covered
…
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Dear shujun,
First of all apologize for my bad English. I have sequenced dozens species, these species belong to the same genus (eg. wild, cultivars, landrances), and I will construct a pan-genome. S…
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Hi,
I have a question regarding using parental HiFi instead of Illumina data for a trio-phased assembly (all experiments done with recent versions of hifiasm and yak).
When doing this, we observed f…
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Hi!
I'm just wondering if there is a manual, documentation, or a rule of thumb that can help us in setting the configurations when using PECAT. Recently, we used PECAT to correct ONT reads of a ba…
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Hello, I would like to inquire about the input data format. When preparing the config.SFs file, I observed that it is possible to input non-chromosomal data. Consequently, I prepared two datasets.
Th…
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Det er flere kriterier som er viktige for valg av kilde:
- Det må inneholde verdier/egenskaper vi skal levere ( minus motorveg ).
- De må inneholde gode hierarkiegenskaper
- Uten geometrifeil
- Det må…
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Hello,
I am trying to run Flye on a 2.9 Gb fish genome of ~30X coverage. The Median overlap divergence step has been running for 6 days now. I am using the raw-ONT data as input using the command …
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Hi @arangrhie
Thank you and the team for great QC tool. I have two questions:
1) I have parental data from HiFi and MGI platform. I used HiFi parental data and MGI for assessment. HiFi based phasin…
LGG02 updated
4 months ago