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Hi,
are there any plans to implement the use of trusted contigs with metaSPAdes? If not, why is it not possible?
Cheers
Oskar
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Hi, what do you think about pre-assembling Illumina reads into contigs before using them to correct Nanopore reads?
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Hi @mlin
I want to merge two big sets of gvcf files, one set has the contig of `hs37d5`, the other don't. When I tried to run glnexus_cli, I got the following error:
```
[7451] [2020-09-24 17:19…
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Hello, i am running the following command:
#!/bin/bash
#SBATCH -J metacom_CJ_Car
#SBATCH -t UNLIMITED
#SBATCH -p Node2
#SBATCH -n 12
python3 /home/geonho/tools/MetaCompass-2.0-beta/go_meta…
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It is described in the documentation that one can reuse contigs across nullarbor runs by using the prefill option, such that {ID} is substituted with the ID of each sample.
My question is then:
Is…
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Hello, I need help in interpreting abricate (vfdb) result.
Based on result below can I assume that there is hilA gene in the analyzed strain? I mean if I can sum coverage results for these fragments …
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Hi VIni,
I keep getting this error message:
[Sat Jul 13 01:49:37 2024]
Error in rule concatenate_contigs:
jobid: 56
input: output/assembly/megahit/coassembly/coassembly.contigs_rename…
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Traceback (most recent call last):
File "/share/soft/BASALT_script/BASALT", line 141, in
BASALT_main_c(assembly_list, datasets, num_threads, lr_list, hifi_list, hic_list, eb_list, ram, contin…
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Currently, the way my pipeline works is that it outputs a bam for the spike-in controls, and another for the genomic contigs. Due to this, I cannot run scan_genomic_contigs() because if I run on only …
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Add a plot which lets you view the
y: proportion of cDNA (alternatively the RPKM)
x: gDNA
fit a regression line across and find things which are 2 SDs away from the regression