CAGE-seq tracks Track Settings
 
CAGE-seq tracks

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Assembly: Zebrafish Sep. 2014 (GRCz10/danRer10)

CAGE-seq tracks

The whole CAGE-seq dataset including raw data and metadata annotation can be found in the DANIO-CODE Data Coordination Center (https://danio-code.zfin.org/dataExport/?view=table&selected_facet=CAGE-seq-assay_type)

This is a CAGE-seq super track that groups together signal (bigWig format) and tag cluster regions (bigBed format). These tracks were produced by the DANIO-CODE CAGE-seq pipeline.

The main processing pipeline of the DCC ("CAGE_pipeline_v1.6") consists of 4 different processing steps :
#.Sequence quality filtering / trimming (FastQC) #.Mapping to the reference genome (Bowtie) #.Tag clustering (Paraclu-9)

There is also an additional signal conversion step for reformatting the input from the main pipeline to adequate UCSC track input format (DANIO-CODE CAGE-seq signal conversion pipeline v1.0).

Track definition: CAGE-seq tracks consist of 2 parts: #. CAGE-seq TSS signals #. and CAGE-seq tag clusters

For more information on how the data were processed, please refer https://gitlab.com/da-bar/DANIO-CODE_CAGE-seq.