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Hi,
if paired-end reads would be used in call mode, how to generate a input file? would read1 and read2 be in different rows?
thanks in advance !
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If the sample assembly with a small amount of contamination or a large amount of contamination is too large, can the -n parameter be used?
example:
hifiasm -u -n 20 -o mushroom-4 -t 20 mushroom-4.f…
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Hello MaSuRCA team,
I used MaSuRCA (version: MaSuRCA-3.2.7) to de novo assemble Brassica genomes. However, I meet the following error messeage:
Running locally in 1 batch
compute_psa 2044593 5215…
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Hi all,
I usually run `unicycler` on minion + illumina reads but got some raw reads from pacbio the other day and wanted to try it. I used `bam2fastq` to get fastq files from the pacbio bam files, …
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Hello,
For the hifisam software to assembly the genome, we can get the `*.a_ctg.gfa` and `*.p_utg.noseq.gfa` file, but I want to know the
position of the `*.a_ctg.gfa` se…
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Hi All,
I am new to bioinformatics, self-learning as I go and have limited knowledge in it. I am trying to assembly an E. coli genome using Illumina reads and ONT reads. I was able to assemble 2 ou…
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Hi @chhylp123,
I tried to run the latest hifiasm version (0.19.8-r603) with data that I was running (successfully) with before. There is only one difference, UL reads are rebasecalled using dorado.…
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```
ProtectedOutputException in line 199 of /home/tereiter/github/2020-ibd/.snakemake/conda/7218b88cfb8b4e4
e84f86d335f04be9e/lib/python3.8/site-packages/spacegraphcats/conf/Snakefile:
Write-protec…
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Hey! I was able to install spacegraphcats and run the two tests provided without any errors. I then tried to test it out myself using one of the Tara metagenomes (reads first cleaned up with fastp the…
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@zgliwen
Let's move your issue over here. please.
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@rafelafrance
hi,
I also had the same…