Mercurial > repos > ebi-gxa > seurat_create_seurat_object
view seurat_create_object.xml @ 0:f8865ae30723 draft default tip
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 9bf9a6e46a330890be932f60d1d996dd166426c4
author | ebi-gxa |
---|---|
date | Wed, 03 Apr 2019 11:19:37 -0400 |
parents | |
children |
line wrap: on
line source
<tool id="seurat_create_seurat_object" name="Seurat CreateSeuratObject" version="2.3.1+galaxy0"> <description>create a Seurat object</description> <macros> <import>seurat_macros.xml</import> </macros> <expand macro="requirements" /> <expand macro="version" /> <command detect_errors="exit_code"><![CDATA[ seurat-create-seurat-object.R --input-object-file '$input' --output-object-file '$output' ]]></command> <inputs> <param name="input" type="data" format="rdata" label="Seurat object" help="RDS file from Seurat read10x module." /> </inputs> <outputs> <data name="output" format="rdata" from_work_dir="*.rds" label="${tool.name} on ${on_string}: Seurat RDS"/> </outputs> <tests> <test> <param name="input" ftype="rdata" value="deng.rds"/> <output name="output" ftype="rdata" value="seurat.rds" compare="sim_size"/> </test> </tests> <help><![CDATA[ .. class:: infomark **What it does** Seurat_ is a toolkit for quality control, analysis, and exploration of single cell RNA sequencing data. It is developed and maintained by the `Satija Lab`_ at NYGC. Seurat aims to enable users to identify and interpret sources of heterogeneity from single cell transcriptomic measurements, and to integrate diverse types of single cell data. This tool creates a Seurat object from an RDS object. ----- **Inputs** * RDS object from Seurat read_10x module. ----- **Outputs** * Seurat RDS object .. _Seurat: https://www.nature.com/articles/nbt.4096 .. _Satija Lab: https://satijalab.org/seurat/ @VERSION_HISTORY@ ]]></help> <expand macro="citations" /> </tool>