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Hi,
Is it possible to have DRAGMAP report all alignments similar to BWA-MEM with the `-a` option? This seems possible with the different `sec` parameters, but I have not been able to get more than …
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Input is FASTA reference. Output is the aligner index, samtools faidx and picard sequence dictionary.
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Hi Adrian,
Using an aligner such as STAR or Tophat seems to give more alignments/content from indrop sequence reads compared to the current Bowtie aligner usage. Would it be possible to incorporate…
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I have a very long read (~500kb) which I try to align using `mappy` in python using the `MD=True` flag and this gives a Segfault. This read does not align well, with a large amount of soft-clipping.
…
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Hi!
First of all, thank you a lot for providing this intriguing and well-documented piece of software.
I am working on an [experimental longread aligner](https://github.com/feldroop/floxer) and …
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What would be the command line parameters for `parasail_aligner` for doing local pairwise alignment (without gaps within the sequences) of two DNA sequences
For example, `1.fa` is like this
```
…
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Firstly, thank you for `rust-bio`! I'm a new user, and enjoying it.
I just want to confirm that `bio::alignment::pairwise::Aligner` does not also align the reverse complement. Is there an aligner in …
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I've experienced a memory leak when using the python `mappy.Aligner` when initialized with a sequence file/FASTA (this is within [Megalodon](https://github.com/nanoporetech/megalodon)). This same memo…
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Heya,
I'm going to give this a whirl on a plant HiC assembly I have but I get the error message :
failed to re-allocate 131,158,140,720 bytes for 8,743,876,048 DP cells
Could you suggest what…
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Hi,
Do you have any plans to replace BLAST with [diamond](https://github.com/bbuchfink/diamond) which is an accelerated BLAST compatible local sequence aligner?
Michal