openpipelines-bio

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27 packages

reference/cellranger_mkgtf
Published Aug 9, 2024 by openpipelines-bio in reference/cellranger_mkgtf

43
qc/integration_report
Published Apr 18, 2024 by openpipelines-bio in qc/integration_report

43
reference_build_cellranger_arc_reference
Published Mar 12, 2024 by openpipelines-bio in reference_build_cellranger_arc_reference

35
create_pseudobulk/differential_expression
Published Jul 24, 2025 by openpipelines-bio in openpipeline/create_pseudobulk/differential_expression

35
scgpt/integration_pad_tokenize
Published Mar 22, 2024 by openpipelines-bio in scgpt/integration_pad_tokenize

33
dataflow/split_h5mu_train_test
Published Aug 14, 2024 by openpipelines-bio in dataflow/split_h5mu_train_test

30
demux_cellranger_atac_mkfastq
Published Mar 12, 2024 by openpipelines-bio in demux_cellranger_atac_mkfastq

30
dimred/densmap
Published Aug 14, 2024 by openpipelines-bio in dimred/densmap

30
scgpt_integration_preprocessing
Published Mar 27, 2024 by openpipelines-bio in scgpt_integration_preprocessing

28
dataflow/split_h5mu
Published Aug 16, 2024 by openpipelines-bio in dataflow/split_h5mu

26
mapping/cellranger_atac_count
Published Aug 23, 2024 by openpipelines-bio in mapping/cellranger_atac_count

22
dataflow/split_samples
Published Jun 14, 2024 by openpipelines-bio in dataflow/split_samples

11
dataflow/csr_dtype_cast
Published Nov 27, 2024 by openpipelines-bio in openpipeline/dataflow/csr_dtype_cast

10
qc/integration_metrics
Published Mar 26, 2025 by openpipelines-bio in openpipeline/qc/integration_metrics

9
annotate/singler
Published Aug 5, 2025 by openpipelines-bio in openpipeline/annotate/singler

9
transform/bpcells_regress_out
Published Aug 27, 2024 by openpipelines-bio in transform/bpcells_regress_out

8
scgpt/annotation
Published Jul 10, 2024 by openpipelines-bio in scgpt/annotation

5
dataflow/convert_to_sparse
Published Mar 12, 2025 by openpipelines-bio in openpipeline/dataflow/convert_to_sparse

4
labels_transfer/pynndescent_knn
Published Jun 14, 2024 by openpipelines-bio in labels_transfer/pynndescent_knn

3
qc/integration_report
Published Mar 26, 2025 by openpipelines-bio in openpipeline/qc/integration_report

3
labels_transfer/pynndescent_knn
Published Aug 30, 2024 by openpipelines-bio in openpipeline/labels_transfer/pynndescent_knn

0
reference_mapping/scarches
Published Mar 21, 2025 by openpipelines-bio in openpipeline/reference_mapping/scarches

0
differential_expression/deseq2
Published Aug 26, 2025 by openpipelines-bio in openpipeline/differential_expression/deseq2

0
tiledb/move_mudata_obsm_to_tiledb
Published Aug 22, 2025 by openpipelines-bio in openpipeline/tiledb/move_mudata_obsm_to_tiledb

0
filter/filter_with_pattern
Published Aug 26, 2025 by openpipelines-bio in openpipeline/filter/filter_with_pattern

0
filter/delimit_counts
Published Aug 26, 2025 by openpipelines-bio in openpipeline/filter/delimit_counts

0
differential_expression/create_pseudobulk
Published Aug 26, 2025 by openpipelines-bio in openpipeline/differential_expression/create_pseudobulk

0