Python-bioinformatics Alternatives
Similar projects and alternatives to python-bioinformatics
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perl-for-reysenbach-lab
These are perl scripts I developed over many years as a Bioinformaticist for the Reysenbach Lab at PSU. The Reysenbach Lab studies microbial diversity in extreme environments. Lotta fasta utilities here if you are into that sort of thing.
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InfluxDB
Power Real-Time Data Analytics at Scale. Get real-time insights from all types of time series data with InfluxDB. Ingest, query, and analyze billions of data points in real-time with unbounded cardinality.
NOTE:
The number of mentions on this list indicates mentions on common posts plus user suggested alternatives.
Hence, a higher number means a better python-bioinformatics alternative or higher similarity.
python-bioinformatics reviews and mentions
Posts with mentions or reviews of python-bioinformatics.
We have used some of these posts to build our list of alternatives
and similar projects. The last one was on 2022-09-01.
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Calculating tetranucleotide (k-mer) frequencies
This script is available for download on my GitHub page. To test for speed, I ran these two scripts five times each with two different sequence examples; a full genome file containing one long fasta record, and a Metagenome Assembled Genome (MAG) file containing 1708 shorter fasta records. Python was 2.9 times faster than Perl for the full genome, and 2.1 times faster than Perl for the MAG. I’ve recently become aware of the optimizing compiler RPerl, which allows Perl to be compiled into “ultra-fast and fully-compatible” C++, so I’m excited to try this out and see how the results compare to both Perl and Python.
Stats
Basic python-bioinformatics repo stats
1
0
0.0
about 2 years ago
The primary programming language of python-bioinformatics is Python.
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