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Answer: How many reads for WGS Sequencing?
by
Mensur Dlakic
★
27k
It takes 29 seconds to assemble this genome (20 CPUs) with the following statistics:
135 contigs, total 2821177 bp, min 200 bp, max …
Comment: NGS forensics: how to know if data is fabricated
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noodle
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IMO (and unfortunately) there needs to be an effort to develop these algorithms.
Comment: gvcf joint calling
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the samples that are `./.` have no coverage (or not enough to call a genotype) and the `0/0` are homozygous reference
Answer: How many reads for WGS Sequencing?
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Did you download the complete dataset available from ENA/NCBI SRA? This is an older dataset (from 2012) with a total of 1146212 reads and 1…
Comment: When to use .vcf or .gvcf files from GATK HaplotypeCaller?
by
zihanss
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Hello, I want to know that why my gVCF files have "./." besides "0/0", "1/1"?
Thanks
Comment: gvcf joint calling
by
zihanss
•
0
![enter image description here][1]
[1]: /media/images/15eedc1a-b2c6-4966-be39-b5173dab
And I confused with the file that has "./." and…
Comment: gvcf joint calling
by
zihanss
•
0
![enter image description here][1]
[1]: /media/images/16fd502c-4e01-4f56-8562-0e0d4aac
Okay, this is the merged gVCF file.
Comment: Help understanding how KEGG Ortholog `K00004 ` has 3 ECs associated with it (EC:
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Mensur Dlakic
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Enzymes under the umbrella of `1.1.1.-` work `with NAD(+) or NADP(+) as acceptor`. That only tells you about their cofactors, but not about…
Comment: NGS forensics: how to know if data is fabricated
by
dsull
★
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I don't think people have undertaken the effort to create an anomaly detector for RNAseq -- people's efforts are dedicated towards developi…
Comment: NGS forensics: how to know if data is fabricated
by
dsull
★
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I'd say post on pubpeer -- it's the best forum for this sort of discussion.
As for what additional analysis I recommend: I'd say look at s…
Comment: NGS forensics: how to know if data is fabricated
by
noodle
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> This is a super-interesting question from an algorithmic standpoint
Ya, I was hoping to find some algorithm that would compare say a 're…
Comment: ScRNAseq-How to correctly choose cell type marker genes
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Francesco
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Thank you for your valuable suggestion!
Comment: NGS forensics: how to know if data is fabricated
by
noodle
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> My first question would be how strong your background in such analysis
> is.
Very strong. PhD+several years working in the field.
> Wot…
Comment: NGS forensics: how to know if data is fabricated
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ATpoint
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My first question would be how strong your background in such analysis is. Claim of fabrication is very serious, so be 100% sure to back it…
Answer: NGS forensics: how to know if data is fabricated
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Jeremy Leipzig
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This is a super-interesting question from an algorithmic standpoint (devising a model that can distinguish real from synthetic reads) but I…
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