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I have a couple hundreds of single amplified genomes from single cell assemblies which have low completeness (completeness
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@Midnighter requests at https://github.com/SBRG/bigg_models/issues/368:
Many models in BiGG are currently annotated with a taxonomic identifier and a reference to the model itself, for example, as …
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After updating to 0.4.3, genome_fetcher.py reported error:
```
DAJIN2 --control barcode01 --sample barcode02 --allele actc1L_cont_knockin.fa --name 02 --genome xenLae2 --threads 8
2024-03-29 11:48…
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Hi, I found a new error!
```
from LingerGRN.preprocess import *
Datadir='/home/baldini/sc/tbx1-2022/python_analysis/LINGER/'# This directory should be the same as Datadir defined in the above 'Down…
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https://github.com/labgem/PPanGGOLiN/blob/83c7d75d2b76df6ba2de8d855cdc281e108e5bba/ppanggolin/figures/ucurve.py#L42
It looks like the chao is using gene families that appear in zero genomes as F1 a…
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Hi,
I used short and long-reads to assemble a bat genome. I used pomoxis to assemble it using a reference, and I got 98 contigs. Busco score was 97%, I then mapped the reads back to the assembly, man…
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Hi and thanks for the tool.
I have been using staramr on my data but I recently obtaind the follwoing result:
- Genome length is not within the acceptable length range [4000000,6000000]
First, wh…
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Hi,
Since bactopia has such a comprehensive toolset (both as part of a workflow, or separate modules and tools), I wondered if a transcriptome workflow would could be added if even realistic?
I'…
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Version: `isosceles v0.2.1`
Running `prepare_transcripts` with bulk ONT reads aligned to chr1 of GRCh38 with minimap2:
```
BAM
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:cool:
### :pushpin: Explain the Request
Some GenBank accessions are unable to be downloaded via the command we currently have in the Assembly_fetch workflow:
```
datasets download genome ac…