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"Latest mapping file downloaded is empty, however AGP mapping files in the past were downloaded with no trouble."
Review download buttons from existing plates, etc. and ensure content is downloadab…
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I'm using geminimulti and pisces on some targeted amplicon sequencing, but each run might contain a different mix of amplicons located around the genome so I can't easily use the chromosomes option to…
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Hi,
Can you add a new filter option using the expected error (sum of (P))?
EE is more useful for amplicon sequencing than the average Q or sliding window method.
Thanks!
Zewei
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I have a two-part question about small batches where processing 5-6 controls is not financially feasible. Context shall follow.
1. Is the recommendation for 5-6 controls a relatively fixed value or…
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To reduce cost, our lab uses combinatorial dual indices (HiTOM primers) to multiplex NGS reactions. The pipeline looks something like this:
Merge paired-end reads: FLASh
Demultiplex/split based on…
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I want to use MGcounts's ability to find communities of multimapping features, on some sequencing data of synthetic constructs. I have made a fasta, aligned to it, and made a fake gtf file with all of…
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[Suggestion to add amplicon resequencing data-processing functionality, brief description of new scripts to aid in this, and request for guidance on unit testing or code review]
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## Justification …
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As of 2021-02-26 we have a max_mutation_parents value of 129, which is clearly pathological. Investigate.
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When demultiplexed with a read structure indicating presence of UMIs (including `M`; ex. `146T8B9M8B146T` for a 9bp UMI), the resulting bam files include per-read UMI sequences via the [RX tag](https:…
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**New term details**
For us to assess a new term request we require the following details:
```
Term name - relative amount of nucleic acids in the gradient position
Structured comment name - gradi…