hhga
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ekg
haplotypes genotypes and alleles example decision synthesizer
A lot of our errors look like this:  But when we go to tview, we see that the problem. The reads match the reference, but only when they don't...
The fermikit unitigs can be read in and handled like the other alignments. Will use `|unitig` namespaces.
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We have two options here: cluster style allreduce or hogwild, we need back of the envelope calculations for which of the two is best. Assuming current machine is on a...
A log of things we try. Robot_1 vs Robot_2 comparisons using different models. Trying: ``` time vw -d ~/NA12878_V2.5_Robot_1.open_w16.hhga.gz --binary --passes 20 -q ha --ngram a5 -c -b 26 -f...
The basic idea is to make two sets of calls, one from global assembly of the input FASTQs (fermikit), and another from global alignment and variant calling (freebayes). We run...
[kills-vw.txt](https://github.com/ekg/hhga/files/234648/kills-vw.txt) I am wondering if it is too large (1.8M). What happens: ``` -> % cat kills-vw.txt | vw --ect 7 Num weight bits = 18 learning rate = 0.5...