myTAI specifications

Information


Unique identifier OMICS_25563
Name myTAI
Software type Package/Module
Interface Command line interface, Application programming interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages C++, R
License GNU General Public License version 3.0
Computer skills Advanced
Version 0.8.0
Stability Stable
Requirements
edgeR, scales, mgcv, gridExtra, tibble, testthat(≥0.9.1), Rcpp(≥0.12.0), ggplot2(≥1.0.1), R(≥3.1.1), biomartr, nortest(≥1.0-2), fitdistrplus(≥1.0-2), parallel(≥3.1.1), foreach(≥1.4.2), doParallel(≥1.0.8), dplyr(≥0.3.0), RColorBrewer(≥1.1-2), taxize(≥0.6.0), methods(≥3.1.1), graphics(≥3.1.1), stats(≥ 3.1.1), grDevices(≥3.1.1), utils(≥3.1.1), reshape2(≥ 1.4.1), readr(≥0.2.2), knitr(≥1.6), rmarkdown(≥0.3.3), devtools(≥1.6.1)
Maintained Yes

Download


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Versioning


No version available

Documentation


Maintainer


Additional information


https://github.com/HajkD/myTAI

Publication for myTAI

myTAI citations

 (2)
library_books

Distribution and diversity of enzymes for polysaccharide degradation in fungi

2017
Sci Rep
PMCID: 5428031
PMID: 28302998
DOI: 10.1038/s41598-017-00258-w

[…] doe.gov/programs/fungi/index.jsf). Finally, the complete taxonomy of each individual strain was retrieved from the NCBI taxonomy server (http://www.ncbi.nlm.nih.gov/Taxonomy/) using the “taxize“ and “myTAI“ packages for the R statistical program. […]

library_books

Evidence for Active Maintenance of Phylotranscriptomic Hourglass Patterns in Animal and Plant Embryogenesis

2015
Mol Biol Evol
PMCID: 4408408
PMID: 25631928
DOI: 10.1093/molbev/msv012

[…] for all other pairwise species comparisons (supplementary table S4, Supplementary Material online). The construction of sequence divergence maps is explained in detail in the advanced vignette of the myTAI R package (). It can be applied to any chosen species pair with available coding sequence genomes and can be computed using the orthologr package (https://github.com/HajkD/orthologr, last access […]

myTAI institution(s)
Sainsbury Laboratory Cambridge, University of Cambridge, Bateman Street, Cambridge, UK; Martin Luther University Halle-Wittenberg, Institute of Computer Science, Halle (Saale), Germany; Swiss Institute of Bioinformatics, Lausanne, Switzerland; Martin Luther University Halle-Wittenberg, Institute of Agricultural and Nutritional Sciences, Halle (Saale), Germany; German Center for Integrative Biodiversity Research (iDiv), Leipzig, Germany
myTAI funding source(s)
Supported by the SKW Piesteritz research prize.

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