circdna
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nf-core
Pipeline for the identification of extrachromosomal circular DNA (ecDNA) from Circle-seq, WGS, and ATAC-seq data that were generated from cancer and other eukaryotic cells.
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...
### Description of the bug Hello, I'm reaching out regarding an intermittent error I've been encountering in my workflow. Specifically, I've observed that on occasion, a particular sample runs smoothly,...
### Description of the bug Hi! I'm using nf-core/circdna with the following configuration: ``` nextflow run nf-core/circdna \ -r 1.0.4 \ -profile docker \ -resume \ --max_cpus 9 \ --max_memory...
### Description of the bug Hi! I'm running the pipeline with the following pipeline: ``` nextflow run nf-core/circdna \ -r 1.0.4 \ -profile docker \ -resume \ --max_cpus 9 \...
### Description of feature The original version of Circle-Map is a little bit slow, especially when it processes reads that contain a high percentage of ChrM. The C++ reimplementation of...
### Description of feature Hello, Would it be possible to add the annotate module of circexplorer2?
Version `3.0.0` 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...
Dear DSchreyer i have the input file like this sample,fastq_1,fastq_2 270502,/path/270502_S0_L001/270502_S0_L001_R1_001.fastq.gz,/path/270502_S0_L001_R2_001.fastq.gz and my run.sh script look like this #! /bin/bash module load nextflow export NXF_SINGULARITY_CACHEDIR=/data/SCLC-AUTOPSY/nextflow/nxf_singularity_cache; export SINGULARITY_CACHEDIR=/data/SCLC-AUTOPSY/nextflow/nxf_singularity_cache/.singularity; export TMPDIR=/lscratch/$SLURM_JOB_ID export...
Version `3.2.1` 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...
- [ ] Fork the pipeline to your user account, if you have not done so before (Make sure you deselect `Copy the master branch only`) - [ ] Go...
