data_barcode: Barcode sequences for five differet taxonomical entities...

In funbarRF: Fungal Species Identification using DNA Barcode with Random Forest

Description

This dataset consists of barcode sequences for both reference and query sets pertaining to the above mentioned five taxonomical entities.

Usage

data (data_barcode)

Details

These datasets have been used in earlier studies for the species identificatin using DNA barcode sequences.

Source

These datasets can be retrieved from http://cabgrid.res.in:8080/spidbar/Dataset/ED-I/.

References

1. Weitschek E., Fiscon G., and Felici G. (2014). Supervised DNA barcodes species classification: analysis, comparisons and results. BioData Mining, 7, 4.

2. Van Velzen R., Weitschek E., Felici G., Bakker F.T. (2012). DNA barcoding of recently diverged species: relative performance of matching methods. PLoS One, 7 (1), e30490.

3. Meher P.K., Sahu T.K., and Rao A.R. (2016). Identification of species based on DNA barcode using k-mer feature vector and Random forest classifier. Gene, 592(2), 316-324.

Examples

data (data_barcode)
fish_reference <- data_barcode$Fish$train
fish_query <- data_barcode$Fish$test

#######################
bat_reference <- data_barcode$Bat$train
bat_query <- data_barcode$Bat$test
#############################
inga_reference <- data_barcode$Inga$train
inga_query <- data_barcode$Inga$test
####################################
drosophila_reference <- data_barcode$Drosophila$train
drosophila_query <- data_barcode$Drosophila$test
####################################
cypraeidae_reference <- data_barcode$Cypraeidae$train
cypraeidae_query <- data_barcode$Cypraeidae$test

funbarRF documentation built on May 27, 2019, 5:03 p.m.