diff --git a/docs/images/nf-core-rnaseq_metro_map_grey.png b/docs/images/nf-core-rnaseq_metro_map_grey.png index 997b807fc..4df8c4822 100644 Binary files a/docs/images/nf-core-rnaseq_metro_map_grey.png and b/docs/images/nf-core-rnaseq_metro_map_grey.png differ diff --git a/docs/images/nf-core-rnaseq_metro_map_grey.svg b/docs/images/nf-core-rnaseq_metro_map_grey.svg index 7204f3ab2..073b02098 100644 --- a/docs/images/nf-core-rnaseq_metro_map_grey.svg +++ b/docs/images/nf-core-rnaseq_metro_map_grey.svg @@ -2,322 +2,653 @@ - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - image/svg+xml - - - - - image/svg+xml - - - - - - - - - - - - - - - - - - - - - - - - - - - - - FASTQ - 1 - 2 - 23 - catfastq - UMI-toolsextract - TrimGalore! - BBSplit - FastQC - SortMeRNA - FastQC - 3 - Salmon - SalmonMultiQC - - - - MultiQCGTFFASTAFASTQ1catfastqsubsamplefastq(fq) - - - - - - - - - TSV - TSV5 - 5modules) - modules)Preseq - Preseq - dupRadar - dupRadar(PCA only) - (PCA only)MultiQC - MultiQC - - - - - - - - - - - rnaseq - rnaseq - - - - - - - - - - - - STAR - STAR - - - - - - Salmon - SalmonHISAT2 - HISAT2RSEM - RSEM - - 4 - - 4stats) - stats)BEDtoolsgenomecov - genomecovbedGraphToBigWig - bedGraphToBigWigUMI-toolsUMI-toolsdedup - dedupStringTie - StringTie - - - - - - - - - - - - - - - - picardpicardMarkDuplicates - MarkDuplicates - - - - - - - - - - - - - - - - - GTF - - - - - - FASTA - - - - - - - TSV - TSV - - - - - - BAM BAM - - - - - BAI - - - BAI - - - - - BIGWIG - BIGWIG - - - - - HTML - HTML - - - - - HTML - HTML - - - - - - - - - - Pseudo-aligner: Salmon, Quantification: Salmon - Pseudo-aligner: Salmon, Quantification: SalmonAligner: HISAT2, Quantification: None - Aligner: HISAT2, Quantification: None - - - Aligner: STAR, Quantification: Salmon (default) - - Aligner: STAR, Quantification: Salmon (default) - Aligner: STAR, Quantification: RSEM - Aligner: STAR, Quantification: RSEMMETHOD - METHODSTAGE - STAGE2. Genome alignment & quantification - 2. Genome alignment & quantification3. Pseudo-alignment & quantification - 3. Pseudo-alignment & quantification5. Final QC - 5. Final QC1. Pre-processing - 1. Pre-processing4. Post-processing - 4. Post-processing - - - - License: - License: - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - + sodipodi:nodetypes="cc" />UMI-toolsextractTrimGalore!FastQCSortMeRNAFastQCinferstrandedness(Salmon)BBSplit