Mercurial > repos > iuc > scanpy_filter

comparison filter.xml @ 5:6d102b066d0c draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/scanpy/ commit 6b5d0d6f038ebd0fae5dbca02ada51555518ed85"
author iuc
date Mon, 10 Feb 2020 10:19:42 +0000
parents 1a4b233265e3
children 9a9944c53825
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4:e2acf3152191 5:6d102b066d0c
405 405
406 Only provide one of the optional parameters `min_counts`, `min_genes`, 406 Only provide one of the optional parameters `min_counts`, `min_genes`,
407 `max_counts`, `max_genes` per call. 407 `max_counts`, `max_genes` per call.
408 408
409 More details on the `scanpy documentation 409 More details on the `scanpy documentation
410 <https://icb-scanpy.readthedocs-hosted.com/en/stable/api/scanpy.pp.filter_cells.html>`__ 410 <https://icb-scanpy.readthedocs-hosted.com/en/@version@/api/scanpy.pp.filter_cells.html>`__
411 411
412 412
413 Filter genes based on number of cells or counts (`pp.filter_genes`) 413 Filter genes based on number of cells or counts (`pp.filter_genes`)
414 =================================================================== 414 ===================================================================
415 415
419 419
420 Only provide one of the optional parameters `min_counts`, `min_cells`, 420 Only provide one of the optional parameters `min_counts`, `min_cells`,
421 `max_counts`, `max_cells` per call. 421 `max_counts`, `max_cells` per call.
422 422
423 More details on the `scanpy documentation 423 More details on the `scanpy documentation
424 <https://icb-scanpy.readthedocs-hosted.com/en/stable/api/scanpy.pp.filter_genes.html>`__ 424 <https://icb-scanpy.readthedocs-hosted.com/en/@version@/api/scanpy.pp.filter_genes.html>`__
425 425
426 426
427 Filters out genes based on fold change and fraction of genes expressing the gene within and outside the groupby categories (`tl.filter_rank_genes_groups`) 427 Filters out genes based on fold change and fraction of genes expressing the gene within and outside the groupby categories (`tl.filter_rank_genes_groups`)
428 ========================================================================================================================================================== 428 ==========================================================================================================================================================
429 429
430 More details on the `scanpy documentation 430 More details on the `scanpy documentation
431 <https://icb-scanpy.readthedocs-hosted.com/en/stable/api/scanpy.tl.filter_rank_genes_groups.html>`__ 431 <https://icb-scanpy.readthedocs-hosted.com/en/@version@/api/scanpy.tl.filter_rank_genes_groups.html>`__
432 432
433 433
434 Annotate highly variable genes (`pp.highly_variable_genes`) 434 Annotate highly variable genes (`pp.highly_variable_genes`)
435 =========================================================== 435 ===========================================================
436 436
441 441
442 Subsample to a fraction of the number of observations (`pp.subsample`) 442 Subsample to a fraction of the number of observations (`pp.subsample`)
443 ====================================================================== 443 ======================================================================
444 444
445 More details on the `scanpy documentation 445 More details on the `scanpy documentation
446 <https://icb-scanpy.readthedocs-hosted.com/en/stable/api/scanpy.pp.subsample.html>`__ 446 <https://icb-scanpy.readthedocs-hosted.com/en/@version@/api/scanpy.pp.subsample.html>`__
447 447
448 Downsample counts (`pp.downsample_counts`) 448 Downsample counts (`pp.downsample_counts`)
449 ========================================== 449 ==========================================
450 450
451 Downsample counts so that each cell has no more than `target_counts`. Cells with fewer counts than `target_counts` are unaffected by this. This 451 Downsample counts so that each cell has no more than `target_counts`. Cells with fewer counts than `target_counts` are unaffected by this. This
452 has been implemented by M. D. Luecken. 452 has been implemented by M. D. Luecken.
453 453
454 More details on the `scanpy documentation 454 More details on the `scanpy documentation
455 <https://icb-scanpy.readthedocs-hosted.com/en/stable/api/scanpy.pp.downsample_counts.html>`__ 455 <https://icb-scanpy.readthedocs-hosted.com/en/@version@/api/scanpy.pp.downsample_counts.html>`__
456 456
457 457
458 ]]></help> 458 ]]></help>
459 <expand macro="citations"/> 459 <expand macro="citations"/>
460 </tool> 460 </tool>