Workflow Type: Galaxy

This workflow processes the CMO fastqs with CITE-seq-Count and include the translation step required for cellPlex processing. In parallel it processes the Gene Expresion fastqs with STARsolo, filter cells with DropletUtils and reformat all outputs to be easily used by the function 'Read10X' from Seurat.

Steps

ID Name Description
8 process GEX reads n/a
9 CITE-seq-Count toolshed.g2.bx.psu.edu/repos/iuc/cite_seq_count/cite_seq_count/1.4.4+galaxy0
10 Rename STAR-solo output toolshed.g2.bx.psu.edu/repos/iuc/pick_value/pick_value/0.2.0
11 translate 10x barcode v2 to 10x barcode v1 toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy1
12 Re-organize CITE-seq-Count output n/a
13 rename CITE-seq output toolshed.g2.bx.psu.edu/repos/iuc/pick_value/pick_value/0.2.0

Version History

v0.5 (latest) Created 7th Oct 2024 at 16:32 by WorkflowHub Bot

Updated to v0.5


Frozen v0.5 799abbb

v0.4 Created 10th Apr 2024 at 03:01 by WorkflowHub Bot

Updated to v0.4


Frozen v0.4 270fcb4

v0.3 Created 7th Mar 2024 at 03:02 by WorkflowHub Bot

Updated to v0.3


Frozen v0.3 0af3a68

v0.2 Created 6th Feb 2024 at 03:01 by WorkflowHub Bot

Updated to v0.2


Frozen v0.2 ed9a8d4

v0.1 (earliest) Created 22nd Dec 2023 at 03:01 by WorkflowHub Bot

Updated to v0.1


Frozen v0.1 bdf1e0d
help Creators and Submitter
Creators
  • Lucille Delisle
  • Mehmet Tekman
  • Hans-Rudolf Hotz
  • Daniel Blankenberg
  • Wendi Bacon
Submitter
License
Activity

Views: 2920   Downloads: 558   Runs: 0

Created: 22nd Dec 2023 at 03:01

help Attributions

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Total size: 194 KB
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