User: stacy734
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Posts by stacy734
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... Thanks very much!
Science marches on...
Stacy ...
written 27 days ago by
stacy734 • 0
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... Hi everyone,
I have a very large file of genomic sequence, and need to bin them by the presence or absence of a specific 20-mer. (Everything with the 20-mer in one file, everything without it in another). I tried using grep but the sequences are multi-line.
Any suggestions will be appreciated.
...
written 27 days ago by
stacy734 • 0
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... Hi everyone,
I am working with some Minia assemblies. These were run using the no-length-cutoff parameter.
Normally I discard small contigs, but I like to see what comes out before i do.
My question: when using the no-length-cutoff parameter, does Minia keep everything, even the singletons, read ...
written 3 months ago by
stacy734 • 0
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Comment:
C: Question about k-mer genie output
... Thank you for the sane advice.
I will proceed with multiple assemblies with different k-mers. ...
written 4 months ago by
stacy734 • 0
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... Hi everyone,
I installed k-mer genie and ran it on a 120GB Illumina dataset.
I get this output:
______________________
running histogram estimation
Extrapolating number of distinct kmers 70000| processing |
[-- ...
written 4 months ago by
stacy734 • 0
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... Hi everyone,
I'm experimenting with Minia for genome assembly of a eukaryote with a 500 MB genome size. I've had good luck adjusting the parameters to find the optimum, except for one: estimated_genome_size.
The manual suggests this:
estimated_genome_size
And I have added this to the command li ...
written 5 months ago by
stacy734 • 0
• updated
5 months ago by
Rayan Chikhi • 1.1k
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