The iGenomes option triggers a different STAR version, so you may find that not using --genome fixes your issue with no additional work. This applies even if you supply the same input files (you can even take them from https://github.com/nf-core/rnaseq/blob/master/conf/igenomes.config...
working with gene panels or single genes (e.g., NF1) in the nf-core/rnaseq pipeline #1472 openedDec 18, 2024byhuma1995 1 Unify SummarizedExperiment outputenhancement #1465 openedDec 10, 2024bygrst 2 ERROR Not able to pull image of ('biocontainers/bioconductor-tximeta:1.20.1--r43hdfd...
RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control. - nf-core CI · Workflow runs · nf-core/rnaseq
RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control. - rnaseq/workflows/rnaseq.nf at 3.10.1 · nf-core/rnaseq
nf-core/rnafusion was written by Martin Proks (@matq007), Maxime Garcia (@maxulysse) and Annick Renevey (@rannick) We thank the following people for their help in the development of this pipeline: Phil Ewels Rickard Hammarén Alexander Peltzer ...
RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control. - nf-core branch protection · Workflow runs · nf-core/rnaseq
_stage3-1.unmapped.fastq.2.gz pituitary_stage3-1.unmapped_2.fastq.gzficat <<-END_VERSIONS > versions.yml"NFCORE_RNASEQ:RNASEQ:FASTQ_ALIGN_HISAT2:HISAT2_ALIGN":hisat2: 2.2.1samtools: $(echo $(samtools --version 2>&1) | sed 's/^.*samtools //; s/Using.*$//')END_VERSIONS...
View the previous changelog at SciLifeLab/NGI-RNAseq/CHANGELOG.mdIn addition to porting to the new nf-core community, the pipeline has had a number of major changes in this version. There have been 157 commits by 16 different contributors covering 70 different files in the pipeline: 7,357 ...
nf-core/rnaseq: Output Introduction This document describes the output produced by the pipeline. Most of the plots are taken from the MultiQC report generated from thefull-sized test datasetfor the pipeline using a command similar to the one below: ...
# 下载流程git clone https://github.com/nf-core/rnaseq.git 下载本地化镜像,并将设置镜像地址 # 在相同目录下,需在联网环境下 nf-core download --outdirsingularity/ --parallel-downloads 10 --container-system singularity rnaseq # 会跳出几个选项,选择默认的就行 ...