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Recent Replies
Comment: Finding batch and outlayers
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christopher medway
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You could perform an ANOVA to test if there is a significant association between batch number and a given Principal Component
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i.sudbery
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Fascinating!
We also use inputs when doing metagene to protect against those situations where regions up or downstream of our metagene al…
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See the section on non full rank design matrices in the DESeq2 manual.
In this case your problem is that healthy and 0dpi samples are e…
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i.sudbery
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Can you clarify what you mean by "100% of reads pass cutadapt, even though 70% of reads contain adapters and get trimmed. " did you set a m…
Comment: NGS forensics: how to know if data is fabricated
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I don't follow your argument for distinguishing between genomic contamination and freud. A data set being bad in terms of genomic contamin…
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Thank you for your detail and great explanation. I do need more time to understand these. And there is still something compuzzling me. For …
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Try using this library [GEOparse][1]
[1]: https://github.com/guma44/GEOparse
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Ruqaiya
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OK. Problem solved. The problem was from my end.
Thank you both for helping !!
Comment: NGS forensics: how to know if data is fabricated
by
Mensur Dlakic
★
27k
Appreciate the suggestion, but that ship has sailed and reached the other shore. This happened 10+ years ago. To the best of my knowledge n…
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analyst
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Files are not opening in any of the computer (ubuntu/windows). I rereun snpEff annotation but still output html files are having missing im…
Comment: Figures are disappeared from html report of SnpEff
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analyst
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I reinstalled nodejs:
> sudo apt-get install nodejs
Its already up to date with version v10.19.0
Answer: NGS forensics: how to know if data is fabricated
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Prash
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Mensur, if I were you, I'd probably contact the CA directly and check with him whether they have reproduced the works recently. There coul…
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Working on it - it's actually a bit difficult. Low coverage of ribosomal proteins. Low coverage of housekeeping genes ...I'm trying to find…
Comment: NGS forensics: how to know if data is fabricated
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I'm a bit against pubpeer - have you ever posted there?
My gripe with them is that the posts are heavily moderated and EDITED to the point…
Comment: NGS forensics: how to know if data is fabricated
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Philipp Bayer
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Thanks Mensur! I'd add that in 9 out of 10 cases, you won't receive a reply to a request for raw data. That's just how scientists are, does…
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