BioAlignments.jl
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BioJulia
Sequence alignment tools
This makes the BAM reader type distributable for parallel computing.
> _This template is rather extensive. Fill out all that you can, if are a new contributor or you're unsure about any section, leave it unchanged and a reviewer will...
While I was benchmarking Julia's `pairalign` (318 μs) against BioPython (7310 µs) and scikit-bio (925 µs) implementation, I found that Julia's local alignment returns a solution with score 63 while...
There seems to be a typo in the file BioAlignments.jl/docs/src/hts-files.md ## Expected Behavior I expected this code to work in Julia 1.1.0: `find(header(reader), "SQ")` I suggest to use findall() instead...
I have a problem when installing the package. I realize the problem is constraining version for the `IntervalTrees` package (multi-package problem), but I don't know where better to post this...
Currently we don't have any support for mpileup files. The format is simple enough that a Automa machine should satisfy this format easily.
Add a `cigar` method and `BioAlignments.Alignment` constructor that accepts `Vector{Tuple{BioAlignements.Operation, Int}}` of operations and lengths. https://github.com/BioJulia/XAM.jl/pull/55#pullrequestreview-1136682026
## Expected Behavior I would like a way to tell if the two _alignments_ are the same regardless of sequence, such that ```julia Alignment("1=1X") == Alignment("2M") ``` ## Current Behavior...
