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George Kargas

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Meme parser

Created: 2024-12-18 01:11:45 | Last updated: 2025-01-27 08:10:31

Credits: George Kargas

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This R script is designed to parse and process MEME motif analysis output files from a directory containing results for different sequence orientations (convergent, divergent, and same) in the context of small open reading frames (sORFs). The script loads necessary libraries, defines functions to parse individual MEME output files (parse_meme_output) and process directories containing these files (process_meme_results). It extracts key information such as motif patterns, widths, number of sit...

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George Kargas

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Batch Predict_Property Analysis for Protein Sequences

Created: 2024-12-17 12:29:43

Credits: George Kargas

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This Python script automates the execution of Predict_Property, a tool for analyzing specific properties of protein sequences, on multiple FASTA input files. Predict_Property can be downloaded from this github repository https://github.com/realbigws/Predict_Property. The script is tailored for batch processing of large datasets, ensuring efficient execution and organized output management.

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George Kargas

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Batch Phobius Analysis for Protein Sequences

Created: 2024-12-17 12:26:51

Credits: George Kargas

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This Python script automates the process of running Phobius, a tool for predicting signal peptides and transmembrane (TM) domains in protein sequences, on multiple input FASTA files. The script is particularly useful for large-scale bioinformatics projects where analyzing numerous protein datasets is required.

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George Kargas

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BLASTP Analysis Pipeline Script

Created: 2024-12-17 12:23:59 | Last updated: 2024-12-17 12:32:28

Credits: George Kargas

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This script processes multiple protein FASTA (.faa) files through BLASTP, comparing them against a specified BLAST database (like nr) to identify species-specific genes.

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