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Hello,
I am writing to you because I am having trouble understanding the output of my results. I have performed a RNA sequencing with RNA004 and I want to know which sites are m6A. When I get the t…
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Implement the `HeaviestBundle` algorithm described in Lee _et al._ (2003) to generate consensus sequences for a POA graph.
Can also be used to obtain RNA isoforms.
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Hi,
I have been using NGSpeciesID on a microbiome dataset with 90 samples (one fastq file per sample).
I use a for loop to loop through these samples with the following command:
```
for file in…
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I've written a wrapper function to calculate consensus sequences from POA alignments using rust-bio. Some sets of sequences panic where I wouldn't expect them too; for example, see the following:
`…
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[P3294R0](https://wg21.link/p3294r0) Code Injection with Token Sequences (Barry Revzin, Andrei Alexandrescu, Daveed Vandevoorde)
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Hi, firstly thank you for creating the nabseq_nf pipeline.
I've been running the nabseq pipeline on Seqera/Tower and noticed that the biggest bottleneck is the `subset_aligned_reads ` step, which f…
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Hello,
I have some short-read genomes that were assembled via reference mapping (different references) that I would like to align to each other. I have consensus sequences with masked reference sites…
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Currently, `ivar consensus` generates a concatenated consensus if multiple references are present.
`iVar` should generate separate consensus sequences for each reference. This is especially useful…
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Hi Ya~~o~~n,
I've expanded few sequences with flanking nucleotides, then I've aligned them, obtaining the MSA and consensus sequence.
However, after aligning the expanded sequences, I would like…
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Hi,
I am having some trouble using hyperfreq with some samples in which a large percentage of the sequences are hypermutated. I assume it is because of the consensus sequences that they are compared …