Variant Graph Support to BioD
null+dlang at njagi.me
Wed May 29 21:28:18 UTC 2019
On Tuesday, 28 May 2019 at 21:24:54 UTC, James Blachly wrote:
> On 5/28/19 5:41 AM, Njagi Mwaniki wrote:
>> Hello I’m Njagi Mwaniki,
>> I am part of the 2019 Google Summer of Code under the Open
>> Bioinformatics Foundation with a project aimed to add
>> variation graph support to BioD under mentors George Githinji
>> and Pjotr Prins.
>> VG is a set of tools that already implements variation graphs
>> but which is a bit broad in its focus. In this project we are
>> building upon the existing tools and knowledge from VG and
>> looking for ways to improve its performance in terms of
>> lookups and also its application with small genomes,
>> specifically viruses and smaller mammals such as mice.
> This sounds like a great project. Be aware that the size of
> the organism (e.g. mouse) has naught to do with the size of its
With regards to the complexity of the genome, we're starting with
a very small virus dataset and building up from it
The mouse is a possible application area of the genome really and
a good place to test the robustness of the tool.
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