You signed in with another tab or window. Reload to refresh your session.You signed out in another tab or window. Reload to refresh your session.You switched accounts on another tab or window. Reload to refresh your session.Dismiss alert
We should add some adversarial testing datasets either to BioSequenceGraphs.
They may take up some space and so we'll have to think about how to do this with bigger datasets.
But for now, I propose adding a PhiX dataset: We can use the PhiX reference genome sequence. Use Pseudoseq.jl to generate paired-end reads. We will need to decide on a read length and average insert size. Once we have the read files we can include the reference and the reads, and use that data to test how our graph functions are working.
The text was updated successfully, but these errors were encountered:
I have used ecoli-ref.fasta available under the example folder of Pseudoseq.jl to generate very short reads (read_length = 20). Then successfully constructed the dbg for k= 10. The resulting graph contains 742343. I will be using this graph for testing the implemented functionalities. It is available in my local yet I can not push it as the file has size 575MB.
We should add some adversarial testing datasets either to BioSequenceGraphs.
They may take up some space and so we'll have to think about how to do this with bigger datasets.
But for now, I propose adding a PhiX dataset: We can use the PhiX reference genome sequence. Use Pseudoseq.jl to generate paired-end reads. We will need to decide on a read length and average insert size. Once we have the read files we can include the reference and the reads, and use that data to test how our graph functions are working.
The text was updated successfully, but these errors were encountered: