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openpipelines-bio
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openpipeline
https://openpipelines.bio
MIT License
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#775
DriesSchaumont
closed
13 hours ago
0
Update 10x and Illumina related components.
#774
DriesSchaumont
opened
1 day ago
0
Remove muon as test dependency for concatenate_h5mu
#773
DriesSchaumont
closed
1 day ago
0
Generate scGPT zero-shot cell type annotation module
#772
dorien-er
opened
1 day ago
1
Implement cellranger mkgtf
#771
jakubmajercik
opened
2 days ago
0
Create `mudata` namespace an move components that perform basic operation on the mudata objec to it (`delete_layer`, `remove_modality`). Most of these currently are put in the `metadata` or `filter` namespace.
#770
DriesSchaumont
opened
2 days ago
0
Update script to work with sparse data
#769
DriesSchaumont
closed
2 days ago
0
763 scgpt split data
#768
jakubmajercik
opened
3 days ago
0
Add option to set axis for clr normalization.
#767
jakubmajercik
opened
3 days ago
0
stdout/err stored on fail
#766
jakubmajercik
opened
3 days ago
0
scGPT binning component
#765
dorien-er
closed
13 hours ago
1
Subset scGPT resources
#764
dorien-er
closed
3 days ago
0
Generate an scGPT module to split data
#763
jakubmajercik
opened
6 days ago
0
Feature/atac count
#762
VladimirShitov
opened
6 days ago
0
scGPT embedding component
#761
dorien-er
opened
6 days ago
1
Release 1.0.0-rc3
#760
DriesSchaumont
closed
1 week ago
0
Fix publishing in process_samples and process_batches
#759
DriesSchaumont
closed
1 week ago
0
Generate scgpt cross check genes module
#758
jakubmajercik
opened
1 week ago
1
Implement cellranger mkgtf
#757
DriesSchaumont
opened
1 week ago
0
Fix missing 'ps' in container images
#756
DriesSchaumont
closed
1 week ago
0
Scgpt dev
#755
dorien-er
closed
1 week ago
0
scGPT padding and tokenization component
#754
dorien-er
opened
1 week ago
0
Tokenize pad
#753
dorien-er
closed
1 week ago
0
Add ability to override axis for clr normalization
#752
ddemaeyer
opened
1 week ago
0
scGPT integration preproc module
#751
dorien-er
closed
1 week ago
0
add script to download scgpt test resources
#750
dorien-er
closed
1 week ago
3
test resources
#749
dorien-er
closed
1 week ago
0
Add densmap component
#748
jakubmajercik
opened
1 week ago
0
Generate scGPT cross_check_genes module
#747
dorien-er
opened
1 week ago
0
CI - Build: Fix second occurance of namespace separator
#746
DriesSchaumont
closed
1 week ago
0
Fix retag for viash-hub not using correct namespace separator
#745
DriesSchaumont
closed
1 week ago
0
Remove unused CI step and improve input checks.
#744
DriesSchaumont
closed
2 weeks ago
0
rna_singlesample: fix 'obs_name_mitochondrial_fraction'
#743
DriesSchaumont
closed
2 weeks ago
0
Add t-SNE component
#742
jakubmajercik
closed
2 weeks ago
1
Release 1.0.0-rc2
#741
DriesSchaumont
closed
2 weeks ago
0
Fix --output arguments in workflows
#740
DriesSchaumont
closed
2 weeks ago
1
Add densMAP component
#739
jakubmajercik
opened
2 weeks ago
0
TODO list for the paper
#738
VladimirShitov
opened
2 weeks ago
1
Add t-SNE component
#737
jakubmajercik
closed
2 weeks ago
0
Update nextflow resource labels for cellbender
#736
DriesSchaumont
closed
3 weeks ago
0
Update tests prebuilt asserters
#735
jakubmajercik
closed
2 weeks ago
0
Update tests for components under multiomics/process_samples
#734
jakubmajercik
closed
2 weeks ago
0
Add scaling to workflows.
#733
DriesSchaumont
opened
3 weeks ago
0
Revert "Cellranger multi: better test for absolute path"
#732
DriesSchaumont
closed
3 weeks ago
0
grep_annotation_column: fix fractions for sparse input data /w low bitsize dtypes
#731
DriesSchaumont
closed
3 weeks ago
0
dataflow/merge all tests refactored and working in pytest - error in …
#730
jakubmajercik
closed
3 weeks ago
0
Output the cellranger log when the cellranger multi process exited with a non-zero exitcode.
#729
DriesSchaumont
opened
3 weeks ago
0
grep_annotation_column: fix calculating fraction for observation with 0 counts.
#728
DriesSchaumont
closed
3 weeks ago
0
Cellranger multi: better test for absolute path
#727
DriesSchaumont
closed
3 weeks ago
0
Feature/atac demux
#726
VladimirShitov
closed
3 days ago
1
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