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Hi,
I've been using minimap2 for quite some time now, however I recently ran into a problem with it. We used Oxford Nanopore to sequence a PCR amplicon, which has a polyA-region, followed by ~30 bp…
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We are using DADA2 to infer alleles from MHC amplicon sequences. Basically we have hundreds of samples and need DADA2 to output fastas for each sample after merging and getting rid of chimeras so that…
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Dear all,
We have been using Lotus2 to analyse Illumina 16S data and have a question regarding the AmpliconShortPE option in the sdm config file.
Until now we used AmpliconShortPE T, as recommend…
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Gut Microbiota Dysbiosis Induced by Decreasing Endogenous Melatonin Mediates the Pathogenesis of Alzheimer's Disease and Obesity -- Zhang et al. -- Frontiers in Immunology
https://www.ncbi.nlm.nih.go…
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I have all of the links in email. This is a great resource for testing new methods.
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ghost updated
3 years ago
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### Operating System
Ubuntu 22.04
### Other Linux
_No response_
### Workflow Version
v1.0.2-g8314146
### Workflow Execution
Command line
### EPI2ME Version
_No response_
### CLI command run
…
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Hello,
I am gettimg error during the process of assign taxonomy. I am working on COI genes and trying to use Midori2 database.
The percentage of nochim was low in my data (~44%). I am not sur…
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```
$ cat contig.fa | seqkit locate -p '"aaggttaa.{0,24}cagcacct"' -r -P -m 2
[ERRO] flag -r (--use-regexp) not allowed when giving flag -m (--use-regexp)
```
Should be `-m (--max-mismatch)`
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Hi there,
I have used the `fasterq dump --split-3 SRR15347541` to download fastq files from SRA both on the Linux server and my own laptop.
But when I want to check the base quality score, there …