https://github.com/jamiemcg/comparesequences

Generates plots to compare properties of protein sequences from different FASTA files
https://github.com/jamiemcg/comparesequences

bioinformatics genomics proteomics visualization

Last synced: 3 months ago
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Generates plots to compare properties of protein sequences from different FASTA files

• Host: GitHub
• URL: https://github.com/jamiemcg/comparesequences
• Owner: jamiemcg
• License: gpl-3.0
• Created: 2019-11-19T23:22:04.000Z (about 6 years ago)
• Default Branch: master
• Last Pushed: 2019-11-25T10:29:11.000Z (about 6 years ago)
• Last Synced: 2025-07-09T23:26:45.128Z (6 months ago)
• Topics: bioinformatics, genomics, proteomics, visualization
• Language: Python
• Homepage:
• Size: 449 KB
• Stars: 6
• Watchers: 1
• Forks: 3
• Open Issues: 0
• Metadata Files:
  • Readme: README.md
  • License: LICENSE

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README

          
# CompareSequences

Generates plots to compare properties of protein sequences from two different FASTA files

[Jamie McGowan, 2019](https://jamiemcgowan.ie)

### Usage:

	

	python CompareSequences.py proteinsA.fasta proteinsB.fasta

	

Plots are generated in the working directory in PDF format, with the filename prefix "plot".

* Aromaticity

* Gravy index

* Instability index

* Isoelectric point

* Molecular weights

* Number of sequences

* Number of each amino acid residue

* Percentage of each amino acid residue

* Protein lengths

* Secondary structure fraction

### Requirements

- [Python](https://www.python.org/)

- [NumPy](https://numpy.org/)

- [Pandas](https://pandas.pydata.org/)

- [seaborn](https://seaborn.pydata.org/)

- [BioPython](https://biopython.org/)

### Example Plots

![](test_data/plotAminoAcidClasses.png)

![](test_data/plotSecondaryStructureFraction.png)

![](test_data/plotNumberOfCysResidues.png)

![](test_data/plotPercentageOfCysResidues.png)