Comments (1)
Hi @kiran-lee ,
Thanks for your detailed explaination!
Based on my experience on mammals (your samples are birds), 2-5Gbp or 8Gbp is good enough for assembling circular mitogenome.
I have no better recommendations now. But maybe you can map all the raw data to the mitogenomes of some closely related species? And use a loose cutoff to keep many alignable reads. Then use the mapped reads to assemble the mitogenome with MitoZ?
Best
from mitoz.
Related Issues (20)
- Issue with tRNA annotation HOT 2
- Error in subcommand annoate in the Singularity image MitoZv3.4. HOT 2
- Problem with annotation HOT 1
- 在select_sequences_by_gene_completeness函数中,运行时出现了错误 HOT 4
- mitoz all: error: the following arguments are required: --fq1, --requiring_taxa HOT 1
- overlap is 0 HOT 9
- Issue with Installation HOT 1
- the result assembled mito genome have more than one contigs HOT 4
- Missing tRNA annotation HOT 8
- MitoZ cannot access input files - Singularity on HPC HOT 4
- A typo in the 'help' section HOT 1
- Nanopore reads HOT 4
- summary.txt empty when no CDS genes annotated HOT 4
- Error during annotation
- Mitogenome sequences identification HOT 3
- extract mitchonderial genome from NGS reads about 90 GB HOT 7
- Missing genes and did not produce circular mitogenome HOT 7
- Endless read from file HOT 11
- fastq format HOT 1
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from mitoz.