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Hello! I am new to CAMISIM and am running into a bit of a roadblock. I am attempting to run metagenome_from_profile.py using the default_config.ini file using the instructions that you gave in the man…
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Hello,
we are doing targeted sequencing using a Qiagen Kit. During library prep the dna is fragmented and tagged with UMI and a universal primer sequence at one end of the strand. So for the enric…
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Hi Diener,
would it possible to provide detailed description on the procedures that generated those GEM reference database? I found it quite useful while I am hesitating to use it in my manuscript wi…
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I found more number of ASV when using 2022.10.backbone.full-length.nb.qza file directly in QIIME2 for V3-V4 sequence taxonomy prediction in comparison to using 2022.10.backbone.full-length.fna.qza via…
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When trying to figure out how to document metabarcoding data, I came across some things that were not super clear to me.
Any insight in this question is much appreciated, and perhaps the terms could …
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**Is your feature request related to a problem? Please describe.**
I think it's quite common that FLASH can't really merge the PE reads, For example:
- 1. amplicon sequence too long or too short…
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[combined_seq_412.fastq.gz](https://github.com/USDA-ARS-GBRU/itsxpress/files/5048580/combined_seq_412.fastq.gz)
`/home/ubuntu/miniconda3/bin/itsxpress --fastq /home/ubuntu/combined_seq_412.fastq.gz -…
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How many N chars in input sequence can virulign tolerate?
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I am trying to implement primerclip as part of my pipeline. However, when testing it on a small sam file, it removes all but two sequences:
```
## The bam file was generated using bwa-mem
$ samto…
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Feature request - Markduplicate
Hi, everybody. In the past, we developed a pipeline GATK to identify somatic variants from Illumina amplicon-based gene panel. Now we are changing our pipeline to a …