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orthGS

R package to Analyse Orthology-Paralogy Relationships among Glutamine Synthetase from Plants.

Installing

To install this package, start R and enter:

if (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("BiocManager")

BiocManager::install("Biostrings") BiocManager::install("muscle") install.packages("orthGS")`

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Version

Install

install.packages('orthGS')

Monthly Downloads

170

Version

0.1.6

License

GPL (>= 2)

Maintainer

Elena Aledo

Last Published

December 2nd, 2024

Functions in orthGS (0.1.6)

gapless_msa

Remove Gaps in a MSA
agf

Angiosperms Gymnosperms Ferns
mltree

Build Up a ML Tree
msa

Multiple Sequence Alignment
coltips

Colouring Tree Tips
A_selected

Adjacency Matrix for Orthology Graph
sdf

Seed Plants and Ferns GS
orthG

Infer GS OrthoGroups Within a Set of Species
speciesGS

Map Species Names
AngGym

Angiosperms Gymnosperms
selected_tr

Ultrametric Rooted Seed Plants Tree
orthP

Search Orthologous of a Given Protein
getseqGS

Get the GS Sequence
madRoot

Find The Root of a Phylogenetic Tree Using MAD Method
mapTrees

Map Gene Tree into Species Tree
subsetGS

GS Proteins Report