Version 8

Dipsacales four locus supermatrix assembled with PyNCBIminer

View Dataset
Cheng, Ruijing;Yi, Yang;Wang, Xiaohan;Liang, Xin;Shrestha, Nawal;Dimitrov, Dimitar;Wang, Zhiheng;Zhao, Pengshan;Xu, Xiaoting

Description

PyNCBIminer is a user-friendly software that automates the assembly of large DNA datasets from GenBank for phylogenetic reconstruction using the supermatrix method.To evaluate the sensitivity of PyNCBIminer to initial queries, we downloaded four DNA markers (ITS, matK, rbcL and trnLintron-trnF) of Dipsacales using two distinct initial query sets. The experiments were performed on a personal computer featuring a 13th Gen Intel(R) Core (TM) i5-1340P 1.90 GHz processor and 32.0 GB of RAM. Run 1 used six well-aligned sequences from six angiosperm orders as default initial queries in PyNCBIminer, while Run 2 used six sequences from six genera within the order Dipsacales.

Citations (0)

Mentions (0)

Metrics

Dataset Index

0.9

FAIR Score

77%

Citations

1

Mentions

0

Metrics Over Time

Publication Details

DOI

Publisher

Dryad

License

Creative Commons Zero v1.0 Universal

Assigned Domain

Subfield

Cell Biology

Field

Biochemistry, Genetics and Molecular Biology

Domain

Life Sciences

Confidence Score

91%

Source

Open Alex

Keywords

DipsacalesSupermatrixGenBankBLASTPyNCBIminerFOS: Biological sciences

Normalization Factors

FT

51.92

CTw

1.00

MTw

1.00