Table 2

Running time and memory use while importing FASTA files

File

EggLib

Biopython


Time (s)

Memory (MB)

Time (s)

Memory (MB)


Large alignment (96.5 MB)

2.19

115.5

2.48

129.6


Oryza sativa coding sequences (92.5 MB)

2.39

100.4

5.12

313.8


Oryza sativa pseudomolecules (361.0 MB)

7.83

396.4

11.49

401.0


Note: The large alignment contains 10,000 sequences of 10,000 bp. The coding sequences of the Oryza sativa genome represent 67,393 sequences ranging from 153 to 16,311 bp while its pseudomolecules represent 12 sequences ranging from 23,011,239 to 43,268,879 bp.

De Mita and Siol BMC Genetics 2012 13:27   doi:10.1186/1471-2156-13-27

Open Data