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Hi,
I have issue similar to #388 #49 #563 , but different in one point.
Namely, I am working with diploid plant genome. I have several individuals sequenced with Pacbio hifi. When assembled with hif…
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./calmeth -b KB1_pe.sorted.bam -m KB1 -Q 20 --remove_dup --coverage 4 -nC 1 --Regions 600 --step 50000 -g 60_C_idella_male_LG.fa
BatMeth2::Split v2.0
Coverage and validC: 4 500, 1
Load Genome.. 60_…
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Thank you again for developing this great tool. We have a fish ONT dataset (10.4.1) which we assembled with nextdenovo to produce a genome size of ~560Mb and an N50=~7Mb.
I thought I should also try…
melop updated
2 weeks ago
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Solicit analyst feedback (some of this has happened already!)
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Related to https://github.com/nextstrain/private/issues/102
It seems like a common pattern for sequencing efforts to focus on specific genes instead of the full genome. It would be helpful for inge…
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The genome size of the species I'm assembling is 2.6Gb, and the ONT data comes from dorado sup v5.0.0 (R10).
When I used 167GB data (>Q7, >10Kb) with "Nanopore-UL-May2022.conf", I got an assembly o…
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I am involved in a genome project for a wild animal species with a huge genome (6.5 Gb).
We expect the genome to be highly heterozygous, and perhaps over half of it will be repetitive sequences.
…
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Hi! Thanks for a great tool. I was wondering if you could implement an option to remove a contig or a list of contigs when calculating the stats. Sometimes I have bacterial contaminations, or the mito…
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Hello,
I found that this software was used to assemble a polyploid plant and I am wondering if it could work as well in my case.
I have 4 plant genomes (sequenced at about 20x, PE libraries up to 45…
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Hello SRY team,
Thank you for creating an useful tool. I am currently trying to use it to assemble a better genome that includes sex chromosomes. I was curious about few things that I couldn't find…