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Hi I've noticed there're problematic sites added for V4 as well. Great work guys!
Just wondering if we can have an additional column for the particular setting (sequencing platforms, amplicon version…
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Hello,
I'm currently working on data preprocessing from multiple Illumina runs.
The first run was sequencend using a v2 kit, while the other runs used v3, which gives me different amplicon sizes (…
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The code in PoolListHandler.get identifies amplicon sequencing pools by process of elimination (i.e., any pool that is is not made up of any kind of known pool plate is treated as an amplicon sequenci…
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Hi,
What parameters do you suggest changing when working on Illumina short-amplicon reads of COI genes?
For example, would you:
- `SelfConsist = TRUE` instead of proving 16 × 41 Transition prob…
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**Current term details**
```
Term name - 16S recovery software
Term ID - MIXS:0000066
Structured comment name - x16s_recover_software
Definition - Tools used for 16S rRNA gene extraction
```
…
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I suggest using the poreCov pipeline as the backend for SARS-CoV-2 wastewater lineage deconvolution from nanopore long reads. You already added `freyja` ( #274 #270), which is great as the current com…
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Templates have been used to create the following files:
- protocol_sampling_CTD.md
- protocol_DNA_extraction_Sterivex.md
- protocol_PCR_16S_V4V5.md
- protocol_PCR_16S_V9.md
- protocol_sequencin…
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A user is having an issue when their file paths have spaces in an arguments file. This issue does not exist when there is no arguments file. It would be helpful for GATK to be able to parse shell quot…
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Hi,
My sequencing data is amplicon sequencing that some regions got excessive coverage. I wonder if I can set a maxi coverage in Pisces.
Thank you!
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I would like to use LACA for shorter amplicons (600 bp) from ONT sequencing.
Can you provide the following options in the laca init so that the config file can work with alternative sequence input…