BLASTOISE: BLAST Oriented to the Identification of SIDER Elements

BLASTOISE (BLAST Oriented to the Identification of SIDER Elements) is a Python-based Linux software designed to automate the identification of SIDER elements within Leishmania spp. species. These retroposons, known for their heterogeneity and degeneration, pose significant challenges in their identification, which BLASTOISE effectively addresses.

BLASTOISE is available as:

• A Docker image on DockerHub.
• Open-source code on GitHub.

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Key Features

• Automated SIDER Element Identification: Tailored for the analysis of Leishmania spp. species.
• Flexible Installation Options: Supports Docker-based deployment for easy containerized usage, as well as installation via git clone and conda environments.
• Robust Libraries: Leverages a range of powerful libraries and tools, including:
  • Pandas for data manipulation (McKinney et al., 2010)
  • BEDOPS for genomic feature processing (Neph et al., 2012)
  • BioPython for biological computations (Cock et al., 2009)
  • BLAST for sequence alignment (Camacho et al., 2009)

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Installation

You can install and use BLASTOISE via docker:

Using Docker

To run the Docker image, first you will need to install Docker engine for Linux, including the Linux postinstall instructions if you want to omit the sudo command. Then, to download BLASTOISE software, follow the next instructions:

docker pull rfpacheco/blastoise

Usage

For the Docker use, follow the BLASTOISE docker use manual.

And for the Post-Processing step, use BLASTOISE docker post processing use manual

License

BLASTOISE is open-source software, licensed under the MIT License.

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