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Recent Replies
Answer: Annotate GFA with coverage depth
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Jordan M Eizenga
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You can annotate Bandage visualizations using a CSV with a certain structure, so you can process the `vg depth` TSV into Bandage's expected…
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Either you are not clear what homologous sequences mean, or you are using some internal definition that makes sense to you. Let's pick an `…
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limma provides a suite of directional pathway analysis functions that are integrated with its DE procedures. They are based on competitive …
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> It showed me the same positions as that of PrimerBLAST.
So we know that result is correct.
You made the BED file manually? It is in cor…
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Thanks for spotting! As mentioned below, it's samples * top adapters. I've made an issue here: https://github.com/MultiQC/MultiQC/issues/31…
Comment: MultiQC_report
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This is exactly the case. Surprising that no-one else has brought this up in 10 years!
I've created an issue here to fix it: https://gith…
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Quick representative check with a random Illumina dataset (50 bp, 200K reads from it).
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I would recommend asking this on the radian GitHub discussion page.
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That being said, I'd like to hear whether the Us in the reference made any difference. It is conceivable that Bowtie 1 treats U as a T.
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> BD Rhapsody protocols
That is important to know. Perhaps the issue is with the way you converted the GFF3 to GTF. What software did you …
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Thank you for your answer!
Unfortunalety, NCBI doesn't have the latest version of the genome and annotations for this organism (v6.1), so I…
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It is always safer to get sequence/annotations from standard sources like NCBI/Ensembl so no manipulations are required to make the data wo…
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Looking at the size distribution the data must already be pre-trimmed so it does not make sense to trim again. You should merge data from t…
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I think it just counts the total number of lines while there could be multiple adapters types per sample (ex : illumina_universal_adapter, …
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