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I am working on a CRISPR data treated by two sgRNAs and sequenced with targeted sequencing. The distance between the two sgRNA is 3000bp which is much longer than amplicon. The targeted area is the w…
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Related to #136, can be reproduced with the same files found in there ([reproduce.zip](https://github.com/user-attachments/files/16993240/reproduce.zip)).
When using the `pcr` module in this case, …
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Dear @cameronmartino and other developers of DEICODE and Gemelli,
Due to the DEICODE Github is being replaced by Gemelli, I also post here although my original comment can be seen in:
https://gith…
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what's mean of No amp/Invalid in amplicon_decomposition_class
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Hi,
I am trying to find a tool that can process nanopore data and identify and trim my PCR primers in the dataset?
How would I do that with porechop_abi? is that possible?
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Thanks for this nice tool @matdoering
I wonder whether it would be possible to specify the desired amplicon size. In my case, I want to amplify small regions of a bunch of genes (one per gene), bu…
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Hi,
Is there a way to use Pavian with amplicon sequencing data (e.g. 16S or 18S)?
Best,
Sam
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Hello!
I have ONT data of a single amplicon that is ~4500 bp in length and would like to identity SVs. I am interested in any SVs present, but specifically, there may be repeats introduced by a h…
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Dear Tobias,
I'm interested in applying SLAM-seq to investigate synthesized reporter libraries to uncover functional variants (usually SNPs) that change mRNA kinetics, in a massively parallel reporte…
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Hi,
Thanks for a great tool. I am playing around with genotyping amplicon data from Nanopore sequencing. I can get Straglr to call certain STRs but not others, and I wonder if I need to do somethin…