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Using the newest version 0.3.1 with or without a reference sequence I found some `null` strings in the consensus sequence.
Also I do not get any `N`s, even if I change `-pluralityN`.
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I'm interested in developing consensus COI reference sequences for major groups in BOLD:
[BOLD](https://www.boldsystems.org/index.php/TaxBrowser_Home)
I'm guessing I can parse the database infor…
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Hi,
Thanks for providing this tool. Is there a crate available to use this rust abPOA repository?
Thanks,
Hang
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Hi,
I found several TE families which were classified as TIR in early stages, but then classified as Gypsy in the final output: HiTE.out (see below). I have manually checked motifs in consensus se…
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Before doing runs, I have been filtering out samples in the Viridian dataset based on two criteria: (1) having full-precision collection dates, and (2) having at most 800 Ns (excluding gaps) in the _*…
szhan updated
1 month ago
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Hi TOAST team,
I am interested in curating the representative genomes for VOCs/VBMs. And according to your recent publication (Xiaoli, Lingzi, et al. "Benchmark datasets for SARS-CoV-2 surveillance…
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Hi Cheng-Kai,
I am running into very long times (5+ days) when running the curator step, even with increasing the thread count to 80. Is there any interest in adding a parameter that can be set to …
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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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Hi!
I would like to use TEtrimmer to curate consensus sequences coming from PANTERA pipeline which identifies TEs from pangenome polymorphisms. For this reason, many of the TE families identified b…