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Module: feature counts
Jaze8 edited this page Jun 7, 2018
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3 revisions
Assign reads to genes.
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Internal name : featurecounts
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Avalaible : local mode
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Input Ports :
- annotation_gtf
- mapper_results_sam
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Output Ports :
- text_txt: text file with a list reads/UMI that have been successfully assigned to a gene.
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Optional parameters :
| Parameter | Type | Description | Default Value |
|---|---|---|---|
| format | string | file format of the input alignment (SAM or BAM) | SAM |
More info: http://bioinf.wehi.edu.au/featureCounts/ and https://github.com/CGATOxford/UMI-tools/blob/master/doc/Single_cell_tutorial.md (step 5)