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Could you please help me refine my workflow for assembling a phased triploid genome using hifiasm and HapHiC?
Here is the current plan:
1. Run the hifiasm pipeline with Hi-C data for triploid as…
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CentOS Linux 7
perl v5.26.2
gcc version 8.3.0
error:
++ pwd -P
+ ROOT=/lustre1/leili_pkuhpc/software/MaSuRCA-3.4.2
+ '[' -z '' ']'
+ DEST=/lustre1/leili_pkuhpc/software/MaSuRCA-3.4.2
+ mkdir…
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Hello, i just installed Wengan and im having this problem. Im running Wengan in a cluster in a single node!
Command:
perl /opt/BIO/wengan-0.2/wengan.pl -x ontraw -a A -s R-subs-0.1-1P.fastq.gz,R-…
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Dear autor:
I am assembling a plant genome, and now it is assembled to the level without gap. It have 21 chromosomes, but so far only 39 have been counted, and there are 3 motifs (AAACCCT) w…
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how to completely uninstall masurca?
thank you
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I am trying to construct a vg multiple sequence alignment of 5 sequence in a FASTA file. I got the following error.
Invocation: `vg msga -f notch2.fa -B 256 -k 22 -K 11 -X 1 -D -A 2>log.err 1>grap…
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Hi,
I wanted to run `dorado correct` on a set of reads spanning a complex satellite region. This worked fine but after mapping I realised that it discarded all the reads in the most repetitive regi…
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Hi,
I'm running a task to assmemble thousands of genes, and it has token about a week. But our servers is offline due to a sudden and irresistible event, so my task was interrupted, and the previo…
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Hi,
I'm hoping you can suggest what I might to do get a little more out of my HiC data.
I have a HiFi assembly of a ~800Gb diploid plant genome that I have previously assembled using hifiasm. Th…
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Hi I am running wtdbg2 on my viral metagenomics shotgun fastq files 56k reads. I was able to assemble long reads, but was unable to create a consensus ctg.fa file. What do you recommend running for …