abPOA
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yangao07
abPOA: an SIMD-based C library for fast partial order alignment using adaptive band
Under Python 3.8, Linux x86 the source package is fetched (there's only a Python 3.7 wheel) but fails to install. ```$ pip install pyabpoa Collecting pyabpoa Using cached pyabpoa-1.4.0.tar.gz (738...
https://github.com/yangao07/abPOA/pull/62 went most of the way to setting up building and pushing wheels to PyPI. There currently are no wheels on PyPI. The GitHub project needs to be given credentials...
I believe there is something wrong with the `abPOA `conda installer as the installed version breaks even with the test data (seq.fa). ``` conda create -n abpoa_env -c bioconda abpoa...
Hi Yan, We are trying to run abPOA (with pre-built binary) on cloud . But we found this binary didn't work between some versions of Intel CPUs, or between AMD...
I want to use the python API but be able to input quality scores, either as phred score strings or as a list of uint8 arrays. It would be great...
Hi, I am trying to get a reasonable alignment in a region which has some tandem repeats, flanked by non-repetitive sequence. I can get good (enough) results in the tandem...
Hi, My lab's Mandalorion and C3POa tools use pyabpoa and it works great. Just every once in a while, we encounter an overlong sequence and pyabpoa stalls for a very...
Hello! I tried to insert other characters/letters aside from A, C, T, and G, but it resulted to letter "N" in MSA. If I want to align amino acid sequences...
Hi, I'm trying to use the library to generate consensus of ONT reads for multiple clusters of reads. Each cluster has around 10 - 30 reads. However, I'm not sure...
