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Hello!Chenxi,@c-zhou
When I run the code
`syncasm -k 1001 -c 100 -t 48 -o green green.fastq`
I got a error:
![6b87038b96b0c9a89580983860337bf](https://github.com/c-zhou/oatk/assets/55218372/fd8c…
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What is the runtime for panaroo for approximately 15000 genomes. Is it standardized for that volume of data. In my case I am usign 40 threads and more then 300 hrs. have passed it's sill running. Any …
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Hi,
I have trouble binding the `vg` lib on linux. Somehow the linking does not work and I don't know why. If I add a wrong library path, then the linker throughs an error, so all the libs are recog…
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Dear all,
When comparing graph genome and linear genome in short reads mapping, I found that graph genome did not improve the short reads mapping. Has this phenomenon also occurred in your side? Fu…
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Hello author, I have a question about reference-free methods. Progressive Cactus is a reference-free multi-genome alignment, and it seems to be independent of the reference genome during the alignment…
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Hello,
I was curious to know how annotation is handled after 2 dbg graphs are merged using VariMerge? Is there an annotation tool (for bacteria) that the authors of this software would recommend al…
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Hello Xiaofei,
Thank you for developing the Haphic software.
I am currently working on the assembly of a complex polyploid genome and I am trying to scaffold the “p_utg” sequences obtained from …
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I attached the output while trying to generate a genome graph...
Any suggestion would be appreciated!
[M::main::0.001*4.79] loaded the graph from "bap1_hg38.fa"
[M::mg_index::0.004*1.46] indexed th…
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We need to document all necessary steps to go from https://github.com/vgteam/odgi over https://github.com/graph-genome/component_segmentation to https://github.com/graph-genome/Schematize/ and visuali…
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Jerven will use spodgi to output a complete triple store graph genome. We'll then have component_segmentation and schematize add to that triple store and use it as the only data source. It's not perfo…