bactmap

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Version `2.14.1` of [nf-core/tools](https://github.com/nf-core/tools) has just been released with updates to the nf-core template. This automated pull-request attempts to apply the relevant updates to this pipeline. Please make sure to...

nf-core-bot

pipeline fails when parameter trim = false

2

## Check Documentation I have checked the following places for your error: - [x] [nf-core website: troubleshooting](https://nf-co.re/usage/troubleshooting) - [x] [nf-core/bactmap pipeline documentation](https://nf-co.re/bactmap/usage) ## Description of the bug When setting trim...

craigwindell

## Is your feature request related to a problem? Please describe The total number of snp differences reported in the output multiqc plot includes low quality snps. Sample Name |...

jennahamlin

Cannot get property 'args' on null object error

2

Hi, Thanks for building this pipeline! I'm running into an error that I haven't been able to solve, copied below. Thanks in advance! command: `nextflow run nf-core/bactmap -profile test,singularity `...

creamerk

In my most recent analysis, each of the fastq files for a sample was 8GB (yes I know) which led fastp to give up the ghost, I think because of...

antunderwood

antunderwood

antunderwood

antunderwood

antunderwood

Hi! this is not necessarily an issue with the pipeline, but in order to streamline the documentation group next week for the hackathon, I'm opening issues in all repositories /...

apeltzer