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Thanks you so much for your developing this stLFR pipelines.
I just downloaded the demo fastq and use the same data to generate two types of sample list with relative file path and absolute file pat…
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Hello,
I got some stLFR reads and wonder whether cloudSPAdes can deal with this type of reads...
Thank you very much.
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Dear Sir,
I was used Aquila_stLFR_fastq_preprocess.py to generate fastq file for step1. Unfortunately, following error messages were appeared with command "/tools/Aquila_stLFR/bin/Aquila_stLFR_fast…
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Hi,
I have some stLFR data which I would like to use with VALOR2 and wonder how I should prepare the bam.
Based on the manuscript I can use bwa-mem, but then I guess I should move the unique barco…
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Hello,
i am trying to run Aquila_stLFR on some stLFR data. As far as i understand the Aquila_stLFR_fastq_preprocess script requires the reads to be part of the read_id in both reads in pair. In t…
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Hello, we are trying to apply mlinker to our dataset, combining stLFR, nanopore and HiC data from the same individual. Previously I compiled mlinker from the repository given in the paper, https://git…
melop updated
3 years ago
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Hi,
Is this repository the official stLFR QC workflow? Or has it been replaced?
Kind regards,
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Hi, I tried to use GraphAligner(GraphAligner -g CPC.HPRC.Phase1.CHM13v2_Non-W.gfa -f /HJ.stLFR_CCS.maternal.fasta.gz -a aln.gam -x vg), But I got several errors message.Can you give me some suggestion…
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Hello,
I was wondering how the alignment process differs based on the `-p` flag for platforms - i.e. `['10x', 'tru', 'cpt']`?
If these change some internal parameters I was wondering if support …
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hi,
I used the run.sh and found the program stopped at step_2_order.sh, as it was running for over one week and give no output.
here is my run.sh:
> #!/bin/bash
> #SBATCH --job-name=scaffold
> …