Publication dateMar 9, 2022
Confidentiality public Public
Star mapping transcriptome reads
TASK
Typing name : TASK.gws_omix.STARMappingTranscriptomeReads Brick : gws_omix STARMappingTranscriptomeReads class. Represents a process that wraps STAR program.
Mapping is done on the whole genome sequence but only reads overlapping gene feature are kept.
--> THIS BAM OUTPUT FOLDER !!! IS !!! COMPATIBLE WITH SALMON QUANTIFICATION TOOL (see SalmonQuantStar class) <---
Configuration options
* threads: Multi threading options: number of threads to use (min=1, max=7). [Default = 2].
* memory: Memory (RAM in Bytes) usage in Bytes. [Default = 4000000000 bytes (=4GB)].
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Input
Folder_fastq_files
Folder containing all RNAseq sequecing files (fastq.gz)
STAR_index_folder
Folder containing STAR index files
Metadata File
Metadata File
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Output
Mapping_output_files
Mapping output file(s) (BAM format) contained in a Folder
settings
Configuration
Number of threads [Default = 2]
Type : intDefault value : 2Memory (RAM in Bytes) usage
Type : intDefault value : 6000000000Technical bricks to reuse or customize
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