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Hi,
What are the asm.st.png and asm.fl.png plot. The asm.st.png looks bit off, portion of the peak is out of the range.
Is it possible to get "CONTINUITY and PHASED" blocks for the haplotype res…
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The examples
### define which columns of the sync file contain the base population
base.pops
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Hello,
I have a trio dataset with 30x coverage of ONT long reads and 30x coverage of pacbio HIFI data for all three samples in the trio.
Is it possible to bin the F1 ONT reads and/or F1 HIFI read…
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Hi, I wanted to ask if you could help me with canu metagenome assembly. I have tried the command you gave in this issue https://github.com/marbl/canu/issues/2150
It always starts to work but then i…
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Hello,
I am assembling the small genome of a diploid protist with Shasta 0.8.0 in phased mode. So far the results looks very promising with a good haplotype separation and very good genome represe…
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Hi Robbie,
I actually have 2 questions:
# 1. `nCore` > 1 causing problem
Something kinda strange happened when I increase the number of `nCore` for STITCH. If I keep `nCore=1`, everything seems t…
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Hi,
I got an error when I ran the third step, and here is the error reporting information.
Skipped filtering phase
Skipped pepper phase
Skipped margin phase
Skipped Flye phase
Finding breakpoin…
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Hello,
I was following the steps in : [https://github.com/marbl/merqury/wiki/2.-Overall-k-mer-evaluation](https://github.com/marbl/merqury/wiki/2.-Overall-k-mer-evaluation) but there is no tdf file…
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[//]: # (Before raising the feature request, please check to see if an existing feature request already exists.)
**Description**
[//]: # (A short description of the feature you are proposing…
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Hello,
I'm testing whatshap polyphase on a triploid with the --include-haploid-sets but I don't understand how to interpret it. Here is a (heavily simplified) part of a vcf file output by whatshap …