Partek Flow Documentation

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SubtitleTextA variety of different aligners are available in Partek Flow. In this tutorial we will use STAR aligner, a popular choice for aligning RNA-Seq data.
AnchorNameInvoking aligner

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Partek Flow offers a variety of different aligners. Mouse over any option for a short description. For this tutorial, we will use STAR, a fast and accurate aligner commonly used for RNA-Seq data. For more information about STAR and the other aligners, please consult the Aligners user guide. 

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SubtitleTextConfiguring the STAR aligner
AnchorNameConfiguring STAR aligner

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Alignment is a resource-intensive task and may take around 20 minutes to complete, even when mapping only reads from a single chromosome. Task and data nodes that have been queued, but not completed, are shown in a ligher color than completed tasks (Figure 3).

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SubtitleTextQueued tasks and their output data nodes are shown in a lighter color
AnchorNameQueued tasks

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The Align reads task generates an Aligned reads data node once complete. You can wait for the alignment task to finish or you can continue building the pipeline while the results of alignment are pending; additional tasks can be added to the pipeline and queued before the current task has completed.

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