In which I describe Average Nucleotide Identity (ANI), which we can use to pigeonhole bacteria into conceptual boxes labelled as 'species'. And I share more code.
A science blog, by a scientist, mostly about computational biology and plant science, but a little rambly in places.
Showing posts with label sequencing. Show all posts
Showing posts with label sequencing. Show all posts
Sunday, 10 November 2013
ANI are you okay? Are you okay ANI?
Labels:
ANI,
bioinformatics,
biology,
biopython,
BLAST,
DNA,
genome,
github,
MUMmer,
phylogenetics,
phylogenomics,
science,
script,
scripting,
scripts,
sequence,
sequence analysis,
sequencing,
statistics,
visualisation
Wednesday, 25 July 2012
Thursday, 19 July 2012
On Reciprocal Best BLAST Hits
In which I narrowly avoid a rant. Reciprocal best BLAST hits can improve the quality of your searching, and are a good way to find candidate orthologues. There's evidence and everything.
Wednesday, 18 July 2012
23 And Me And Me: Part 2
In which the most difficult part of getting yourself genotyped turns out to be dealing with shopkeepers, and I impress the eight-year-old me.
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