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Here
```bash
Processing antitarget: AHKYT7DSXX_S73_L001_BQSR
Keeping 0 of 40893 bins
WARNING: most bins have no or very low coverage; check that the right BED file was used
```
I don't thi…
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Hello,
I am trying to run the pipeline-umi-amplicon on the fastq files generated my minion sequencing. However, I am finding a strange error . Here the command line and error found:
`snakemake -j…
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I am trying to run velveth on my paired files but facing the following error:
[0.000000] Velvet can't handle k-mers as long as 33! We'll stick to 31 if you don't mind.
[0.024794] Reading FastA fil…
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when I use vsearch for amplicon sequencing data analysis, I have installes vsearch
when I use it, something wrong happended:
`ubuntu@ip-172-31-14-112:~/LC$ time vsearch ‐‐usearch_global seq18s-…
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Hello,
Thank you for this great tool!
I'm working with amplicon sequencing data capturing SMN gene. However, my data demonstrate uneven coverage along the SMN1 gene, which has resulted in question…
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"Whole-genome sequencing and targeted amplicon capture" says:
> "Do not mark duplicates in the BAM files for samples sequenced by this method"
However, in the BAM file preparation, it is writt…
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I just came across the preprint and got curious to try out burst.
I need to assigning the taxonomy for Illumina short-reads (MiSeq, up to ~450bp) from an amplicon sequencing run (COI & 16S). Are t…
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I saw in #7 that for amplicon-awared variant calling, the BED file need to have 8 columns storing both the primer and insert positions. However, the BED file that comes with the manufacturer's target…
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Hi Bram,
I am using RTCR to identify the TCR repertoire from amplicon sequencing. I have some more question abouts the output result.
1) how can get the mapping rate for the fastq reads (MiSeq, …
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Hi,
Thanks for the tutorial!
I would like to determine the co-occurrence between two different composition from the same samples (I used two different amplicon sequencing approach from the same sa…