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bioinformatics-pipelines

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prairie-guy / parallel_zip

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A Python wrapper for GNU parallel that naturally embeds shell code into Python scripts or Jupyter notebooks (no delimiter hell). Features parameter substitution, environment substitution, and cross-product generation to eliminate shell loops. Perfect for integrating Unix programs into Python environments for bioinformatics and data science.

python data-science bioinformatics parallel-computing bioinformatics-pipeline shell-scripting gnu-parallel shell-wrappers parallel-computing-toolbox jupyter-pipeline data-science-pipeline bioinformatics-pipelines shell-integration subprocess-alternative jupyter-shell notebook-integration embed-shell-commands shell-from-python jupyter-bash
  • Updated Jun 28, 2025
  • Python

mahvin92 / Seed-Aligner

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Seed Aligner is a light-weight tool that detects a common seed region across genetic sequences and reorders them to start at the same point. It standardizes FASTA inputs for Covary without performing full multiple sequence alignment.

bioinformatics computational-biology bioinformatics-pipeline comparative-genomics genome-assembly alignment-free bioinformatics-analysis genetic genomic-data-analysis genome-alignment genome-preprocessing bioinformatics-pipelines sequence-normalization fasta-processing sequence-orientation seed-alignment covary genetics-analysis
  • Updated Nov 13, 2025

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