Tag: Mitochondrial Genome

Phy-Mer V1.0- Mitochondrial Genome Haplogroup defining algorithm using a K-mer approach

Phy-Mer V1.0

:: DESCRIPTION

Phy-Mer is a novel alignment-free and reference-independent mitochondrial haplogroup classifier.

::DEVELOPER

MEEI Bioinformatics Center (MBC)

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux
  • Python

:: DOWNLOAD

  Phy-Mer

:: MORE INFORMATION

Citation

Phy-Mer: a novel alignment-free and reference-independent mitochondrial haplogroup classifier.
Navarro-Gomez D, Leipzig J, Shen L, Lott M, Stassen AP, Wallace DC, Wiggs JL, Falk MJ, van Oven M, Gai X.
Bioinformatics. 2014 Dec 12. pii: btu825

MitoSeek 1.3 – Extract Mitochondrial Genome information from Exome Sequencing data

MitoSeek 1.3

:: DESCRIPTION

MitoSeek is an open-source software tool to reliably and easily extract mitochondrial genome information from exome sequencing data. MitoSeek evaluates mitochondrial genome alignment quality, estimates relative mitochondrial copy numbers, and detects heteroplasmy, somatic mutation, and structural variance of the mitochondrial genome.

::DEVELOPER

Jiang (River) Li

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux
  • Perl

:: DOWNLOAD

 MitoSeek

:: MORE INFORMATION

Citation

Yan Guo, Jiang Li, Yu Shyr, David C. Samuels.
MitoSeek: Extracting Mitochondria Information and Performing High Throughput Mitochondria Sequencing Analysis.
Bioinformatics (2013) 29 (9): 1210-1211

MitoBank 2.1 – Automatic Retrieval and Parsing of Mitochondrial Genomes

MitoBank 2.1

:: DESCRIPTION

MitoBank is a simple perl script to obtain from GeneBank mitochondrial genomes, parse them, and store the different genes in separate files. It can be used to retrieve both coding genes and RNA genes. Coding genes might be obtained in their amino acid or nucleotide sequence.

::DEVELOPER

Phylogenomics Group at the University of Vigo

:: SCREENSHOTS

N/A

:: REQUIREMENTS

:: DOWNLOAD

 MitoBank

:: MORE INFORMATION

Citation:

Abascal F, Posada D, Zardoya R. (2007)
MtArt: A new model of amino acid replacement for Arthropoda.
Molecular Biology and Evolution 24: 1-5.