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Hi @secastel
As, I understand that PC is a confidence estimate for GW phase. But, I am interested in checking how good are adjacent alleles phased within `Haplotype Block, PI`. In the given data b…
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@secastel
I just wanted to highlight a suggestion that could be incorporated into phaser given your time allows.
`phaser` is designed mainly to generate haplotypes only for the heterozygous site…
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I have realized that phaser seems to take so much of a ram memory. Of several samples I tried there were two samples where phaser really didn't go through even in 2 days after several tries. I set `nu…
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I will repeat the same question which was not covered in previous issue, from @habibr
i am interested on using your program but stumbled upon how the SNP matrix file generated. Is there any scripts o…
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Computer: mac osx
My quest for getting things to work:
First, a non-clang compiler, couldn't figure that out:
```
make CC=/usr/bin/gcc
Cloning into '/Users/smwaters/canu/src/utility'...
War…
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Hello,
I have searched similar issues I ran into, but it did not solve my problem.
I use the cluster to run my jobs, and if I use 'useGrid=False', the job ran successfully but very slow which is not…
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HapCUT2 was preferred over WhatsHap because it is unclear how to use the barcode tags. Check whether 10X data is actually supported by WhatsHap and if so, add it to the pipeline as an alternative to H…
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I've included two logs, one with the `*** buffer overflow detected ***` message, and just the log from HapCUT2.
I was using HapCUT2 with hash: `fd01a1d2794c990d986a720a13905b167eb943d7`
Don't kn…
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Hi,
I have a few questions about runtime performance when using canu for splitting long reads on a human child when short reads from both parents are available, with the **ultimate** aim of adaptin…
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Hi, I am running canu on my raw nanopore reads generated through MinION.
Here is the command I am running:
```
canu --assemble -p pb3 -d pb3-ont corOutCoverage=500 \
corMinCoverage=0 corMhapSens…