I have a channel of tuple (val, file). I assigned it into two channels ch1, ch2. So, both channels have same element and then combined them using comb ...

Hey guys I am kinda new to Nextflow I would like to parse a channel that is a list of tuples that look like that: I would like to filter it to cont ...

So I am new to nextflow, I am trying to pass the bam file produced by ALIGNMENT process to the MKDUP process but its throwing a null value error. I ki ...

I have a nextflow script that runs a couple of processes on a single vcf file. The name of the file is 'bos_taurus.vcf' and it is located in the direc ...

I use a bash script to launch a pipeline composed by multiple nextflow scripts scheduled by slurm. I can run the bash file manually, but it won't work ...

I'm trying to combine outputs from two separate processes A and B, where each of them outputs multiple files, into input of process C. All file names ...

I have a Nextflow pipeline that runs a BUSCO search on input data, returns the output and then creates a report based on the output. One of my paramet ...

Suppose I have nextflow channels: Which results in: How do I run a process foo that executes matching read-lib pair, where the same lib is used ...

I am trying to use Nextflow to run a pipeline for RNA sequence; however I keep having issues with Java. Currently the error I am receiving is: I h ...

I have a Nextflow pipeline that has two channels. The first channel runs and outputs 6 .tsv files to a folder called 'results'. The second chann ...

Which one of the two Management System (Cromwell vs Nextflow) would be better for the optimization of job execution time? Google Kubernetes(GKE) is u ...

I am new to Nextflow and I want to unzip a fastq.gz file. But It raised the error gunzip: SRR1659960_05pc_R1.fastq.gz is not a regular file. I tried t ...

How to run nextflow sarek pipeline using aws batch in cloud9 environment? I tried and I am getting " ...

I'm trying to apply use a loop to use the function fastp on a nextflow block, but I'm not sure how to set up a loop with two variables. I would want t ...

I have a DSL2 Nextflow pipeline that branches out to 2 FILTER processes. Then in the CONCAT process, I reuse the two previous process outputs as input ...

This might be a very basic question for you guys, however, I am have just started with nextflow and I struggling with the simplest example. I first e ...

Trying to perform a fairly simple gzip command across my fastq files, but a strange error returns. Error: Tried running a loop in the script ins ...

New to nextflow, attempted to run a loop in nextflow chunk to remove extension from sequence file names and am running into a syntax error. Error: ...

I am trying to test the workflow https://github.com/avsastry/modulome-workflow but getting an error. I am using a windows 10 laptop with Debian instal ...

I'm writing a pipeline in Nextflow and want to use multiple different conda (existing) environments to avoid inconsistencies in tool installation and ...