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### The Problem
Using the Pairwise alignment in BioFSharp.Algorithms works fine but the only implemented way to write out this alignment in a correct format is in the BioFSharp.IO.Clustal module. A…
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jcvi.graphics.ribbon module is a modified version of the synteny module which allows plotting of arbitrary alignments and multiple genomic feature tracks. Ribbon plots are not based on ortholog linkag…
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This is a meta-issue collecting tasks which are transformed into single issues:
~~The implementation is blocked by #295~~
# General
`align` seems to be the best fit for the namespace in order…
rrahn updated
2 years ago
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Please consider supporting the pairwise mapping format of minimap2:
https://github.com/lh3/miniasm/blob/master/PAF.md#paf-a-pairwise-mapping-format
Note that minimap2 also supports outputting SAM.…
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## Platform
- SeqAn version:
- Operating system:
- Compiler:
## Question
In earlier versions of SeqAn there was a function called localAlignmentScore (https://docs.seqan.de/seqan/m…
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## Platform
- SeqAn version: 3.3.0
## Question
Is there a documented way to extract, from a pairwise alignment result, the alignment slice positions (equivalent to the coordinates[] list of…
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```
hp_pairwise_align --amplicons_fa haphpipe_assemble_02/final.fna --ref_fa ../HIV_B.K03455.HXB2.fasta --ref_gtf ../HIV_B.K03455.HXB2.gtf --outdir haphpipe_assemble_02
[--- pairwise_align ---] U…
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Hi, I was wondering if the multi-way contacts derived from the alignment file are stored in a dedicated file and if yes which one ?
The "alignments.parquet" file contains only filtered pairwise alig…
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Keep reference sequence fixed at the top (like currently in pairwise alignments) when scrolling through the alignment view after aligning seq reads to a ref seq
![Screen Shot 2018-07-06 at 7.12.03 PM…
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**Lab Name**: Bioinformatics and Data Science in Biotechnology Lab
**Department**: Biotechnology and Biomedical Engineering
**List of Experiments and Repositories**:
1: Writing and…