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Comment: NGS forensics: how to know if data is fabricated
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noodle
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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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noodle
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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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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…
Comment: How many reads for WGS Sequencing?
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Ruqaiya
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I had downloaded the two files in a similar manner actually.
Comment: How many reads for WGS Sequencing?
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Ruqaiya
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ok, i'll try to use fastp. I have only used trimmomatic and cutadapt till now and they dont identify on its own. Except the graph in fastqc…
Comment: How many reads for WGS Sequencing?
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Ruqaiya
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got it! even if i'm doing the assembly for paired end with both the files do i have set the threshold to 1000bp ?
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i've been in our org trying to push such a detector, our use-case is much more limited: I want to make simulated eDNA libraries as real as …
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> What is the best method to test for differential abundance at the isoform level? Salmon returns TPM values instead of the counts which Li…
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Can you post an IGV screenshot of what this looks like?
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Yeah some of the Illumina machines pre-trim adapters (not sure if this is still the standard). I've also definitely also seen quality-trimm…
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You can typically find much more useful info in the cif file, for example what you've found is called '_atom_site.pdbx_PDB_ins_code ' and d…
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The best way to find out is to read the original paper. My guess is that the residue has been crystallized in alternative conformations, wh…
Answer: NGS forensics: how to know if data is fabricated
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Mensur Dlakic
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I share the opinion by @philippbayer I have seen enough questionable things in life and in science to keep me permanently jaded, but there…
Comment: How many reads for WGS Sequencing?
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Mensur Dlakic
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I downloaded the data in two files from the link you provided. With this command:
megahit -1 ERR072246_1.fastq.gz -2 ERR072246_2.fastq…
Comment: How many reads for WGS Sequencing?
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Mensur Dlakic
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If you have Linux the assembly should work on your system, but 8 GB is generally not enough for assembling larger genomes.
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