Connect with us

Software

MAIRA: New Program for Metagenomic Sequencing Data Analysis

Published

on

MAIRA-metagenomics analysis

MAIRA is a new software for taxonomic and functional analysis of long reads without requiring any external resource [1]. It can easily facilitate the execution of metagenomic analysis pipelines on a local computer. It is fast and allows users to perform several analyses in real-time including genus-level analysis and frame-shift alignment of DNA reads.

The main advantage of this software is that it can be easily run on a laptop without any external source support, especially when we have to use workstations for large datasets.

How does MAIRA work?

The complete workflow of MAIRA is shown in Figure 1.

  1. At first, long reads obtained from a sequencing device are aligned at the protein level against a precomputed database of genus-specific marker genes.
  2. Based on this alignment, the genus profile is made in real-time.
  3. The user triggers the presence of specific genera which marks the ‘On-demand species-level analysis’.
  4. The protein alignment obtained at the second step is aligned against a full database of proteins associated with the triggered genus.
  5. Finally, a protein graph is generated including the details about the identification of species, resistance, and virulence factors.

Fig. 1

Figure 1 The complete workflow of MAIRA (Figure source: Albrecht et al., 2020) [1].

The software can be downloaded from here.

For further details about MAIRA, read here.


References

  1. Albrecht, B., Bağcı, C., & Huson, D. H. (2020). MAIRA-real-time taxonomic and functional analysis of long reads on a laptop. BMC bioinformatics21(13), 1-12.

Tariq is founder of Bioinformatics Review and CEO at IQL Technologies. His areas of expertise include algorithm design, phylogenetics, MicroArray, Plant Systematics, and genome data analysis. If you have questions, reach out to him via his homepage.

Advertisement
Click to comment

You must be logged in to post a comment Login

Leave a Reply

Software

How to execute matlab from terminal in Ubuntu (Linux)?

Published

on

How to execute matlab from terminal in Ubuntu (Linux)?

While trying to install Matlab [1], it generally gives an error stating “matlab: command not found.”. Here, we provide a solution to this error.

(more…)

Continue Reading

Software

How to install Kpax on Ubuntu (Linux)?

Published

on

How to install Kpax on Ubuntu (Linux)?

Kpax is a bioinformatics program to search and align protein structures [1]. It is currently available for Linux platforms only. In this article, we are going to install the latest version of Kpax (5.1.3) on Ubuntu (Linux). (more…)

Continue Reading

Secondary structure

How to run do_dssp command (mkdssp) in Gromacs 2022?

Published

on

How to run do_dssp command in Gromacs 2022?

In the latest version of GROMACS (2022) [1], there are some issues regarding the gmx do_dssp command. Apparently, this command either does not run displaying a fatal error, or if it runs then it does not read any frame from MD simulation files. In this article, we are going to run the same command for GROMACS 2022. (more…)

Continue Reading

LATEST ISSUE

ADVERT