Dr. Flanman

hi, i'm just wondering, after i perform porechop should i use canu to correct and trim before using ngmlr or can i just go straight to ngmlr cheers, peter

Multiple files at once

1

Hi, This is a question, can someone explain to me how to run multiple aligned.fasta files at once? And I want the data all outputted into one .csv file rater...

Install hanging

4

Hi All, I am trying to install Roary via Conda install Roary but its been hanging now for the last 3 hours. Any ideas? Cheers ![Screenshot 2022-02-03 at 14 21...

Hi, I'm trying to install Nullarbor in a new environment but when I do --check it says it cannot find database.idx Can anyone help? Cheers, P (Nullarbor) [peflanag@login3 ~]$ mkdir...

MakeFile:154: ref.fa.fai error 1

2

Hi, I ran nullarbor with the make ref.fa preview. It ran fine and then I ran make again make And got the the following error. Can enone provide me with...

Query: Mixed sample - separate reads?

2

Hi, I'm not sure if this is possible but thought I would ask. I am working with mycobacteria and one of our samples is a mixed sample. I believe Karken...

Installation

4

Hi, can someone please tell me how I install Trimmomatic? The documentation I'm reading isn't very straight forward for the non bioinformatican! Ive popped the folder in my home directory...

Uploading metadata

2

Hi, I use the website https://achtman-lab.github.io/GrapeTree/MSTree_holder.html to visualise trees and for the time being have been entering metadata manually. Is there a way to upload the metadata from an excel...

Hi, I am wondering is it possible to include the loose hits on the heatmap? It would be of benefit for me to show to the consultants I work with....

Hi, I'm new to RGI and I was running 16 samples through it. Half way through my samples I get the following error; OSError: [Errno 16] Resource busy: '/Volumes/NMRSARL/MiSeqFastQFiles/S_maltophilia/RGI/M220598.fasta.temp.predictedGenes.json' The...