README.md 1.07 KB
Newer Older
Keith Jolley's avatar
Keith Jolley committed
1
2
3
4
Bacterial Isolate Genome Sequence Database (BIGSdb)
===================================================
**Gene-by-gene population annotation and analysis**

Keith Jolley's avatar
Keith Jolley committed
5
Written by Keith Jolley, © 2010-2016 University of Oxford
Keith Jolley's avatar
Keith Jolley committed
6

7
<a href="http://www.biomedcentral.com/1471-2105/11/595">Jolley & Maiden 2010, BMC Bioinformatics 11:595</a>
Keith Jolley's avatar
Keith Jolley committed
8
9
10
11
12
13
14
15
16
17
18

BIGSdb is software designed to store and analyse sequence data for bacterial
isolates. Any number of sequences can be linked to isolate records - these
can be small contigs assembled from dideoxy sequencing through to whole genomes
(complete or multiple contigs generated from parallel sequencing technologies
such as 454 or Illumina).

BIGSdb extends the principle of MLST to genomic data, where large numbers of 
loci can be defined, with alleles assigned by reference to sequence definition 
databases (which can also be set up with BIGSdb). Loci can also be grouped into
schemes so that types can be defined by combinations of allelic profiles, a
19
20
21
concept analagous to MLST.

The latest version of the BIGSdb documentation can be found at 
Keith Jolley's avatar
Keith Jolley committed
22
http://bigsdb.readthedocs.io.