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Hello everyone,
This is my first commit and although I have been searching for answers around the web, I do apologize if this is redundant!
From preliminary 16s microbiome relative abundance dat…
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Any thoughts or future plans on incorporating multiple sequence alignment algorithms?
P.S. really found your library useful :smile:
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As always, I assume there is a way to do this seqkit, but my fu is not strong enough to find it.
I have a BED file of positions/columns I would like to **keep** from a multiple sequence alignment.
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I would like to propose adding the option to use the "Fast Optimal Global Sequence Alignment Algorithm" (FOGSAA) [1] both for pairwise and multiple sequence alignments. Given that FOGSAA provides alig…
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The multiple sequence alignment algorithm used in VSEARCH, the centre-star method, is rather simple. Consider implementing a better algorithm.
As a start, unaligned residues to the left of the firs…
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I am trying to use maf_parse to split a maf generated from a [hal](https://github.com/ComparativeGenomicsToolkit/hal), which has some blocks where the same source sequence is included multiple times. …
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## Question
I have just started using seqan3. I have worked with seqan2 though. I want to ask about multiple sequence alignment and alignment graphs in seqan3. I could not find anything about MSA i…
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The "Inferring remaining multiple sequence alignments and gene trees" has been ended by our SLURM scheduler due to time limit. Only 6 jobs out of 35000 were still running. Is it possible to run them m…
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Hi David,
I'm using Orthofinder to analyze 19 species, and the mission is stuck. The supercomputer I rented has been running for a dozen days and still hasn't run 19 species. The commands I use are a…
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Hello Tim!
Thanks again for the great simulation tool!
I've been using ```remaster``` and ```feast``` to generate sequence alignments from an SIR-like epidemic. I was wondering whether there wa…