https://github.com/bryancastillo10/biobytes-pairsync

https://github.com/bryancastillo10/biobytes-pairsync

Last synced: about 2 months ago
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• Host: GitHub
• URL: https://github.com/bryancastillo10/biobytes-pairsync
• Owner: bryancastillo10
• License: mit
• Created: 2023-12-03T15:01:09.000Z (about 1 year ago)
• Default Branch: main
• Last Pushed: 2024-01-08T06:00:09.000Z (about 1 year ago)
• Last Synced: 2024-01-08T11:07:03.937Z (about 1 year ago)
• Language: Python
• Size: 1.52 MB
• Stars: 0
• Watchers: 1
• Forks: 1
• Open Issues: 0
• Metadata Files:
  • Readme: README.md
  • License: License.txt

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README

        
### BioBytes PairSync: A Bioinformatics Tool for Basic Information Retrieval and Pairwise Sequence Alignment

[Download Installer! ](https://github.com/bryancastillo10/BioBytes-PairSync/releases)

Click on "biobytes_pairsync_setup.exe" at the releases page.

![Static Badge](https://img.shields.io/badge/BioBytes_PairSync-v1.0.1-%23009E73?style=plastic&labelColor=%23363636%20)

![Static Badge](https://img.shields.io/badge/Python-%233776AB?style=for-the-badge&logo=python&logoColor=%23F0E442&labelColor=%230072B2&color=%2356B4E9)

![Static Badge](https://img.shields.io/badge/PyQt-%2341CD52?style=for-the-badge&logo=Qt&logoColor=%235EFB75&labelColor=%23000000&color=%23009E73)

### Demo





This GUI app allows users to input biological sequences, either manually or by loading from a file. It supports DNA, RNA, and Protein sequences. Users can retrieve various information about the input sequence, such as **nucleotide or amino acid frequency**, **GC content**, **reverse complement**, **transcription**, **translation**, **amino acid molecular weight**, **isoelectric point**, and **open reading frames**.

Users can save the output information to a text file and clear the output section for a clean slate. Additionally, loading sequences from FASTA or text files is supported, making it convenient for users to work with existing sequence data.

Enjoy exploring the functionalities provided by this GUI app for basic sequence analysis!

## Usage

### Basic Information

- Please select the **Biomolecule Type** of your data (_DNA, RNA, or Protein_).

- Add a **Label** (Optional). It would add _"No Sample Label Added"_ if no entry added

- Add the sequence **Input Box**. Make sure it is in correct format and without whitespaces. NCBI URL is also accepted under the Nucleotide Database.

- You can **Clear** the output or **Save** it as _.txt file_

### Dot Plot Alignment

- Input your first and second sequence at **Sequence 1** and **Sequence 2** box respectively. Additionally, it is optional to add a **Label**

- Take note that whitespaces and totally unequal lengths prompts error and not allowed for this alignment

_It is highly recommended to add Label as it would appear in the plot_

- The **Plot Button** allows to generate the Dot Plot with associated information of match & mismatch bases/amino acids.

- The output can be saved by clicking the **Save Button** as _.png file_

### Local and Global Alignment

- Both Local and Global Alignment had the same _User Interface Layout_ but they differ in the algorithm used since they have different purpose.

- Input your first and second sequence at **Sequence 1** and **Sequence 2** box respectively. Additionally, it is optional to add a **Label**

- Make sure no whitespaces included on the sequence and they are compatible for pairwise alignment (**sequence length** may be _different_ but not applicable for pair of sequences which has _large difference in length_)

- You can **Clear** the output or **Save** it as _.txt file_

Thank you for using my developed tool :ship:

#### Donations

Developer: _Bryan Castillo_

[Paypal! ](https://paypal.me/BryanAngeloCastillo)

It would help me to build more...