Nihir Patel

Hello, I am very much interested in using Kallisto as part of our pipeline, however, the bottleneck is the one the step in our pipeline that uses [Bam-Readcount](https://github.com/genome/bam-readcount). The tools...

Hello, Thank you for amazing work on this pipeline, it's very comprehensive. I am wondering if there is any way to specify `--2colour` / `--nextseq` flag during trimming step. I...

Understand above_error_rate and why it's always False for insertion

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Hello, Thank you for such a great pipeline; it's been really helpful for our analysis. We've run a few hundred samples through different versions of the pipeline. When we reviewed...