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Hi @tseemann, I see you posting often on this github, so thought I'd ask!
I'm having some issues getting a core genome alignment of around 300 full-length _E.coli_ sequences w/ ROARY.
The prog…
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In my assembler `shovill` i estimate the genome size from kmer frequencies and use that to subsample the reads to a fixed coverage (100x) much like rasusa does:
https://github.com/tseemann/shovill/…
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This was thrown together quite quickly and could do with some improvements:
- [ ] More options for representing genomes (currently they need to be converted to a position paradigm (reg->pos) list
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## Prokaryotes
This entry was created as part of issue #866 by @erasche on 2016-02-11. I split the issue to address separately.
#
[A] list of things I promised my PI I'd file as issues, that are m…
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Dear @yinlabniu,
Thank you again for a very important tool to annotate CAZymes and identify CGCs in the microbial genomes of interest.
I am interested in examining how complete are the CGCs in my …
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Hello,
I have tried datasets of up to a thousand genomes, but no matter what I do, I get failure to converge. Is there something I'm doing wrong? Here is an example of how I'm running the code:
./…
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I noticed some occasional messages while running version 0.2.2 that loads inbetween `Starting accession #/# (%)`, such as:
1. `Error: Failed to send request`
2. `Error: Invalid checksum line forma…
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Hello,
I used the STAR-Fusion v1.9.0 to built my genome lib with prep_genome_lib.pl, but no matter what version genome I used, all of them reported the following errors:
**died with ret 9 No such…
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While running code "run_cicero", I keep getting "The previous R session was abnormally terminated due to an unexpected crash"
I don't know what to do,I also test the other data, meet the same issue…