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Hi.
I'm wondering if this algorithm can be employed to targeted sequencing panel other than MSK-IMPACT?
Thanks.
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Hello all,
I did an alignment of long-reads (~5000nt) against a reference with breseq version 0.36.1. Here is the command line:
```
breseq -r "$REFERENCE" -p --polymorphism-frequency-cutoff 0…
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Thanks for the clear documentation and awesome tool.
I can run your sample data successfully. But when I used my own sequencing data, it ran for two weeks with no results. I think I got stuck at som…
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I was wondering the location of fastq and fast5 for in-vitro oligomer ligation assay. I am trying to reproduce the Figure 6C from Workman et al. (2019) Nature Methods.
akk01 updated
3 years ago
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Implement RNA-Sequence Analysis Workflow as per the following steps.
Quality assess and clean raw sequencing data
Align reads to a reference
Count the number of reads assigned to each contig/gene…
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Dear Adam, Gil, and other developers,
Thank you very much for developing and maintaining LDhat. I was hoping you could help me with a couple of questions, and I hope this is the right place for tha…
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Dear Developer,
I am wondering if there is anyway to use msisensor2 to detect MSI in the whole-exome sequencing data with mouse tumor samples? Do you know if there is any other program that can do …
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Hello! I encountered the following error. I tried to check the source code but I can't locate where the function is because there is no file called 'oligo_filter.py'. What's the possible cause of this…
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Motivated by https://github.com/nextstrain/pathogen-repo-guide/issues/50:
> It seems like a common pattern for sequencing efforts to focus on specific genes instead of the full genome. It would be…
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The file type fg.gz is very common for RNA sequencing data and it would be great to add (especially since I have a dataset with many of these files)