Skip to main content

Table 2 Performance examples of typical BLASTGrabber operations*

From: BLASTGrabber: a bioinformatic tool for visualization, analysis and sequence selection of massive BLAST data

BLAST file ~90.000 queries (file size 640 MB )
Import (creation of *.bgr file) ~5 minutes
Resulting *.bgr file ~45.000 queries** (file size 140 MB).
Opening the *.bgr file ~30 seconds
Opening matrix viewer, 10 rows × 10 cols (100 cells) ~1 second
Opening matrix viewer, all queries × 10 cols (450.000 cells) ~2 seconds
Selecting a significant subset (e-value < e-5) <1 second
Saving the selected significant subset ~10 seconds
  1. *as tested on a laptop computer; 1.4 GHz Core i5 2537 M processor, 4 GB of memory, SSD hard drive.
  2. **on average 23 hits pr. query; queries without hits were excluded from the BLASTGrabber input file.