nf-core/cageseq is a bioinformatics analysis pipeline used for CAGE-seq sequencing data. The pipeline takes raw demultiplexed fastq-files as input and includes steps for linker and artefact trimming (cutadapt), rRNA removal (SortMeRNA, alignment to a reference genome (STAR or bowtie1) and CAGE tag counting and clustering (paraclu).

DSL2 NextFlow wrapped CAGE-Seq analysis pipeline from demultiplexing to base pair resolution read counting (i.e. compatible import to CAGEfightR) - MazdaX/nf-cage

nf-core/cageseq is a bioinformatics analysis pipeline used for CAGE-seq sequencing data. The pipeline takes raw demultiplexed fastq-files as input and includes steps for linker and artefact trimming ( cutadapt ), rRNA removal ( SortMeRNA , alignment to a reference genome ( STAR or bowtie1 ) and CAGE tag counting and clustering ( paraclu ).

nf-core/cageseq is a bioinformatics analysis pipeline used for CAGE-seq sequencing data. The pipeline takes raw demultiplexed fastq-files as input and includes steps for linker and artefact trimming (cutadapt), rRNA removal (SortMeRNA, alignment to a reference genome (STAR or bowtie1) and CAGE tag counting and clustering (paraclu).

Jun 11, 2019 · In the closing moments of the video for “The Search,” NF climbs into the cart, folding up into the fetal position. While NF left the Perception cage behind, reaching a new pinnacle of success in the process, he continues to face …

DSL2 NextFlow wrapped CAGE-Seq analysis pipeline from demultiplexing to base pair resolution read counting (i.e. compatible import to CAGEfightR) - MazdaX/nf-cage

v1.0.0 (Gold Lion) - [2020-10-16] Initial release of nf-core/cageseq, created with the nf-core template.

nf-core/cageseq is a bioinformatics analysis pipeline used for CAGE-seq sequencing data. The pipeline takes raw demultiplexed fastq-files as input and includes steps for linker and artifact (including 5’G) trimming (cutadapt), rRNA removal (SortMeRNA), alignment to a reference genome (STAR or bowtie) and CAGE tag counting and clustering (paraclu).

To this aim, we used Cap Analysis Gene Expression (CAGE) sequencing, of 24 different tissues from 3 populations of cattle, to define TSS and their coexpressed short-range enhancers (<1 kb) in the ARS-UCD1.2_Btau5.0.1Y reference genome (1000bulls run9) and analyzed tissue and population specificity of expressed promoters.

DSL2 NextFlow wrapped CAGE-Seq analysis pipeline from demultiplexing to base pair resolution read counting (i.e. compatible import to CAGEfightR) - MazdaX/nf-cage