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openpipelines-bio
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openpipeline
https://openpipelines.bio
MIT License
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Add possibility to specify raw data layer in process_samples pipeline.
#702
DriesSchaumont
closed
3 months ago
0
Dataset nxf schema
#701
dorien-er
closed
3 months ago
0
Change separator for arguments with multiple input from `:` to `;`
#700
rcannood
closed
3 months ago
1
Pin jax,jaxlib for scvi-tools
#699
DriesSchaumont
closed
3 months ago
0
Bump nf-core/setup-nextflow from 1.5.1 to 1.5.2
#698
dependabot[bot]
closed
3 months ago
0
Add extra test utilities, logging and asserters
#697
DriesSchaumont
closed
2 months ago
2
FEATURE: Add functionality to exlcude some features from the analysis.
#696
DriesSchaumont
opened
3 months ago
0
Beef up specs for cellbender
#695
ddemaeyer
closed
2 months ago
0
Fix integration tests profiles
#694
DriesSchaumont
closed
3 months ago
0
add modality specific input types
#693
dorien-er
closed
2 months ago
1
Backport PR #690 to 0.11.x
#692
DriesSchaumont
closed
3 months ago
0
Backport PR #690 to 0.12.x
#691
DriesSchaumont
closed
3 months ago
0
move_obsm_to_obs: fix setting output columns when they already exist.
#690
DriesSchaumont
closed
3 months ago
0
Remove ProfilesHelper.config and add nextflow configs to project config
#689
DriesSchaumont
closed
3 months ago
0
Backport PR #685 to 0.11.x
#688
DriesSchaumont
closed
3 months ago
0
Backport #685 to 0.12.x
#687
DriesSchaumont
closed
3 months ago
0
Backport PR #685 to 0.12.x
#686
DriesSchaumont
closed
3 months ago
0
Fix calculating qc metrics when var_qc_metrics columns are BooleanArrays
#685
DriesSchaumont
closed
3 months ago
0
Backport PR #678 to 0.10.x
#684
DriesSchaumont
closed
3 months ago
0
Bump nf-core/setup-nextflow from 1.5.0 to 1.5.1
#683
dependabot[bot]
closed
3 months ago
0
Backport PR #678 to 0.10.x
#682
DriesSchaumont
closed
3 months ago
0
Backport PR #678 to 0.10.x
#681
DriesSchaumont
closed
3 months ago
0
Backport PR #678 to 0.12.x
#680
DriesSchaumont
closed
3 months ago
0
Backport PR #678 to 0.11.x
#679
DriesSchaumont
closed
3 months ago
0
log1p: fix input layer argument being unused.
#678
DriesSchaumont
closed
3 months ago
0
Bump viash-io/viash-actions from 4 to 5
#677
dependabot[bot]
closed
3 months ago
0
Add nextflow labels config to viash configs.
#676
DriesSchaumont
closed
3 months ago
0
cellranger_mkfastq: update cellranger from 6.0.2 to 7.0.1
#675
DriesSchaumont
closed
3 months ago
0
Viash 0.8.0: Make sure to add the nextlow labels to the config
#674
DriesSchaumont
closed
3 months ago
0
Cellranger in mkfastq demux components needs to be upgraded from v6.1 to v7.0.1+
#673
LucHendriks
closed
3 months ago
0
Add gdo_singlesample pipeline with basic filtering.
#672
DriesSchaumont
closed
3 months ago
1
Basic filtering on gdo layer count matrix
#671
MatthiasBeyens
closed
3 months ago
0
Backport PR #631 to 0.12.x
#670
DriesSchaumont
closed
3 months ago
0
Backport 619 to 0 12 build
#669
DriesSchaumont
closed
3 months ago
0
Rename workflows
#668
DriesSchaumont
closed
3 months ago
1
Refactor filter_with_hvg to highly_variable_features_scanpy
#667
DriesSchaumont
closed
3 months ago
1
CI - Integration Tests: Allow setting deploy branch build and fix build
#666
DriesSchaumont
closed
3 months ago
0
Update viashpy to 0.6.0
#665
DriesSchaumont
closed
3 months ago
0
Bump nf-core/setup-nextflow from 1.4.0 to 1.5.0
#664
dependabot[bot]
closed
3 months ago
0
Add more logging output to `metadata/add_id` component.
#663
DriesSchaumont
closed
3 months ago
0
Bump actions/cache from 3 to 4
#662
dependabot[bot]
closed
3 months ago
0
Bump tj-actions/changed-files from 41 to 42
#661
dependabot[bot]
closed
3 months ago
0
CI - Integration tests: perform build as a subworkflow.
#660
DriesSchaumont
closed
3 months ago
1
Backport PR #653 to 0.11.x
#659
DriesSchaumont
closed
3 months ago
0
Backport #653 to 0.11.x
#658
DriesSchaumont
closed
3 months ago
0
Backport PR #653 to 0.11.x
#657
DriesSchaumont
closed
3 months ago
0
Backport #653 to 0.12.x
#656
DriesSchaumont
closed
3 months ago
0
filter_with_scrublet: set xfail on flaky tests.
#655
DriesSchaumont
closed
3 months ago
1
CI - Build: Allow setting component version
#654
DriesSchaumont
closed
3 months ago
0
Concatenation: fix order of var_names in concatenated object.
#653
DriesSchaumont
closed
3 months ago
0
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