Devon O'Rourke
Devon O'Rourke
Hi, My goal is to take a set of .fast5 data derived from 9.4 flow cells base call with bonito. What I'm unclear about is whether I need to train...
Hi everyone, The Shiny apps are amazing and incredibly helpful to sift through large amounts of information interactively. I can't stress how happy and excited I am to have a...
Hi again folks, **Problem 1** I noticed a minor tweak needed to load the example data in the *shinyGraphing* directory in the server.R script on line 36: `thetas
Hi Ryan, Things continue to work exceptionally well with Unicycler - thank you for such an easy yet powerful program. I'm getting hung up trying to complete one last sample...
Hi Robert, Apologies for a potentially simple question: what is the fastest way to read the sequence data into memory with Racon? I'm using a pretty big AWS instance (r5.24xlarge...
Hi Ivan, I started my first Racon run a few days ago. Around the 48 hour mark, I started to wonder how things were still progressing - I observed the...
Nanopore
Is there anything in the structure of amptk that would prohibit using Nanopore amplicon data as input? Fragment lengths are ~1500 bp. Input fastq are already adapter and quality trimmed...
Hi, I'm curious if it's possible to run npScarf with ONT reads aligned to a reference genome (consisting of unique contigs). I've aligned the long reads with `minimap2` to generate...
Hi there, I sent out a tweet a few hours ago (https://twitter.com/thesciencedork/status/1012398574582353920) wondering if there was a way that your program could seamlessly work with files annotated with [Prokka](https://github.com/tseemann/prokka). I...
Hi, I've tried running ORP through the Conda installation method [proposed here](https://hackmd.io/@macmanes/SJhOQvkVm?type=view), as well as an alternative installation where I manually installed each piece separately following the same steps offered...