1.9.3
More information can be found at https://scanpy.readthedocs.io
20.09
=1.4.2).
1.3.2+galaxy1: Normalise-data and filter-genes: Exposes ability to output 10x files.
1.3.2+galaxy0: Initial contribution. Ni Huang and Pablo Moreno, Expression Atlas team https://www.ebi.ac.uk/gxa/home at
EMBL-EBI https://www.ebi.ac.uk/ and Teichmann Lab at Wellcome Sanger Institute.
]]>
--input-format '${input_format}' input.h5
#if $save_raw
--save-raw
#end if
#if $save_layer
--save-layer ${save_layer}
#end if
#if str($output_format).startswith('anndata')
--show-obj stdout --output-format anndata output.h5
#else
--show-obj stdout --output-format loom output.h5
#end if
#if $fig_title
--title '${fig_title}'
#end if
--fig-size '${fig_size}'
--fig-dpi ${fig_dpi}
--fig-fontsize ${fig_fontsize}
${fig_frame}
./output.png
${export_mtx}
scanpy-scripts
10.1038/s41592-021-01102-w
10.1186/s13059-017-1382-0
@misc{githubscanpy-scripts,
author = {Ni Huang, EBI Gene Expression Team},
year = {2018},
title = {Scanpy-scripts: command line interface for Scanpy},
publisher = {GitHub},
journal = {GitHub repository},
url = {https://github.com/ebi-gene-expression-group/scanpy-scripts},
}
10.1101/2020.04.08.032698
output_format == 'anndata_h5ad'
output_format == 'anndata'
output_format == 'anndata_h5ad'
output_format == 'anndata'
output_format == 'loom_legacy'
output_format == 'loom'
export_mtx
export_mtx
export_mtx