Comments (5)
Thanks for the information.
I have created my own fork, and will let you know if I got any questions.
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@scintilla9 ,
Sure thing. I think it has been on my plate for some time. I you work on including it for v3.2
which is currently being tested in dev
branch.
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Hi @fmalmeida
I would like to work on it recently.
And I noticed that when building environment on my local machine with Dockerfile in dev
, the building process will fail due to the url for downloading busco database is no available.
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Hi @scintilla9 ,
Thanks for wanting to help with this.
And yes, the resources of it were deleted. I faced the same when trying to work on another issue (#50).
Basically, I have it fixed but not merged to dev
yet as I did not finish its implementation yet ( I am changing to do the BUSCO run manually instead of by Quast).
So, for you to start working on this one, I would recommend creating a branch from the branch: 50-add-skip-parameter-for-sreads-polishers-and-fix-multiqc-report-names
Are you working on your own fork? If so, would need to "sync" the fork with mine, to have this branch in your repo so that you can create a branch from it.
Otherwise, I can create the branch for you in this repo.
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Hi @scintilla9 ,
I merged the code to the dev branch. As said in the PR, I will start the full dataset testings to guarantee I can make a new release.
Also, I opened a follow-up ticket now that hifiasm
is available: #71
Many thanks for the contribution.
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Related Issues (20)
- add trycycler
- add 3 hybrid strategy HOT 1
- Requesting support with error "Explicit 'name separator' in class" HOT 4
- update tool versions
- add homopolish tool HOT 1
- Add skip parameter for sreads polishers and fix multiqc report names HOT 1
- Incomplete pipeline and different errors when using nanopore reads files with different sizes (900 mb vs 11Gb) HOT 18
- 100% missing in Busco HOT 4
- Enhance documentation (paper review) HOT 2
- Add example of non-bacterial dataset analysis (paper review) HOT 1
- problem with longreads_only assembly HOT 4
- Add a simple parameter to handle starting memory settings HOT 1
- add automatic samplesheet for bacannot
- add the possibility of running directly from SRA IDs
- When not giving `--genome_size` for long reads, message goes to log and not console HOT 1
- allow hifiasm to use hi-c and parental data
- should hifiasm be executed only when user says reads are high quality? HOT 1
- Enhance polishing and downstream as hybracter
- error in running MpGAP with SRR8482585_30X_{1,2}.fastq.gz and SRX5299443_30X.fastq.gz HOT 4
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