Workflows
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CUT&RUN data analysis workflow. It uses fastQC, trim adapters with Trim Galore!, map with Bowtie2, filter the BAM and mark duplicates. Peaks are called with MACS2 and peaks from both replicates are intersected and then intersected to the ChIP peaks. Finally MEME ChIP is run to get the motifs.
Associated Tutorial
This workflows is part of the tutorial CUT&RUN data analysis, ...
Reference-based RNA-Seq data analysis
Associated Tutorial
This workflows is part of the tutorial Reference-based RNA-Seq data analysis, available in the GTN
Features
- Includes Galaxy Workflow Tests
- Uses ...
Reference-based RNA-Seq data analysis
Associated Tutorial
This workflows is part of the tutorial Reference-based RNA-Seq data analysis, available in the GTN
Features
- Includes Galaxy Workflow Tests
Thanks to...
Workflow Author(s): Bérénice Batut, ...
Generating non-reference protein database for FragPipe discovery
Associated Tutorial
This workflows is part of the tutorial Neoantigen 2: Non-Reference-Database-Generation, available in the GTN
Features
- Includes a Galaxy Workflow Report ...
Associated Tutorial
This workflows is part of the tutorial Understanding Barcodes, available in the GTN
Features
- Includes Galaxy Workflow Tests
- Includes a Galaxy Workflow Report ...
Workflow for the second half of the "Bulk RNA Deconvolution with MuSiC" tutorial.
Implements the "Estimation of cell type proportions with pre-grouping of cell types" section
Associated Tutorial
This workflows is part of the tutorial Bulk RNA Deconvolution with MuSiC, available in the GTN
Features
- Includes [Galaxy Workflow ...
Workflow for the first half of the "Bulk RNA Deconvolution with MuSiC" tutorial.
Associated Tutorial
This workflows is part of the tutorial Bulk RNA Deconvolution with MuSiC, available in the GTN
Features
- Includes Galaxy Workflow Tests
- Includes a [Galaxy ...
