Repository revision
18:5603d3e55053

Repository 'scanpy_run_diffmap'
hg clone https://toolshed.g2.bx.psu.edu/repos/ebi-gxa/scanpy_run_diffmap

Scanpy DiffusionMap tool metadata
Miscellaneous
calculate diffusion components
scanpy_run_diffmap
toolshed.g2.bx.psu.edu/repos/ebi-gxa/scanpy_run_diffmap/scanpy_run_diffmap/1.7.2+galaxy0
1.7.2+galaxy0
None
True
Version lineage of this tool (guids ordered most recent to oldest)
toolshed.g2.bx.psu.edu/repos/ebi-gxa/scanpy_run_diffmap/scanpy_run_diffmap/1.8.1+galaxy0
toolshed.g2.bx.psu.edu/repos/ebi-gxa/scanpy_run_diffmap/scanpy_run_diffmap/1.7.2+galaxy0 (this tool)
toolshed.g2.bx.psu.edu/repos/ebi-gxa/scanpy_run_diffmap/scanpy_run_diffmap/1.6.0+galaxy0
toolshed.g2.bx.psu.edu/repos/ebi-gxa/scanpy_run_diffmap/scanpy_run_diffmap/1.4.3+galaxy11
toolshed.g2.bx.psu.edu/repos/ebi-gxa/scanpy_run_diffmap/scanpy_run_diffmap/1.4.3+galaxy10
toolshed.g2.bx.psu.edu/repos/ebi-gxa/scanpy_run_diffmap/scanpy_run_diffmap/1.4.3+galaxy9
toolshed.g2.bx.psu.edu/repos/ebi-gxa/scanpy_run_diffmap/scanpy_run_diffmap/1.4.3+galaxy8
toolshed.g2.bx.psu.edu/repos/ebi-gxa/scanpy_run_diffmap/scanpy_run_diffmap/1.4.3+galaxy6
toolshed.g2.bx.psu.edu/repos/ebi-gxa/scanpy_run_diffmap/scanpy_run_diffmap/1.4.3+galaxy0
toolshed.g2.bx.psu.edu/repos/ebi-gxa/scanpy_run_diffmap/scanpy_run_diffmap/1.4.2+galaxy0
scanpy_run_diffmap
Requirements (dependencies defined in the <requirements> tag set)
name version type
scanpy-scripts 0.4.0 package
Additional information about this tool
ln -s '${input_obj_file}' input.h5 &&
PYTHONIOENCODING=utf-8 scanpy-cli embed diffmap
    --n-comps ${n_comps}
#if $use_graph
    --neighbors-key '${use_graph}'
#end if
#if $key_added
    --key-added '${key_added}'
#end if
    $export_embed
    
    --input-format '${input_format}' input.h5
  
    
#if str($output_format).startswith('anndata')
    --show-obj stdout --output-format anndata output.h5
#else
    --show-obj stdout --output-format loom output.h5
#end if
  
None
False
False
Functional tests
name inputs outputs required files
Test-1 input_obj_file: find_cluster.h5
input_format: anndata
output_format: anndata
use_graph: neighbors
name: value
find_cluster.h5
value