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ASAP-CRN
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pmdbs-sc-rnaseq-wf
Repo for testing and developing a common postmortem-derived brain sequencing (PMDBS) workflow harmonized across ASAP
Apache License 2.0
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workflow diagram needs update
#83
ergonyc
opened
3 days ago
0
update repo name + R history fixup
#82
ergonyc
closed
18 hours ago
1
remove extraneous files
#81
ergonyc
closed
16 hours ago
1
Feature/upgrade scvi tools
#80
kfang4
closed
1 week ago
0
Develop
#79
kfang4
opened
1 week ago
1
metadata "NA" encoding
#78
ergonyc
opened
1 week ago
0
tested changes
#77
ergonyc
closed
2 weeks ago
0
prettify scripts with functions and __name__=__main__
#76
ergonyc
closed
2 weeks ago
0
update wdl and
#75
ergonyc
closed
2 weeks ago
0
update python scripts
#74
ergonyc
closed
1 week ago
1
scib-metrics report not exported?
#73
ergonyc
closed
1 week ago
2
pre- and post- filtering metadata capture
#72
ergonyc
closed
1 week ago
2
update to clustering_umap.py to curate additional leiden clusters at multiple resolutions.
#71
ergonyc
closed
1 week ago
2
Do we do "batch" correction sample-wise or batch-wise?
#70
ergonyc
opened
2 weeks ago
3
rename scripts to clarify their function/role
#69
ergonyc
closed
1 week ago
1
make final artifact name: "final"
#68
ergonyc
closed
1 week ago
0
make "Fixed" parameters for each script clear
#67
ergonyc
closed
1 week ago
1
"project" is NOT an ASAP_CRN defined value. -> "team", "dataset"
#66
ergonyc
closed
1 week ago
2
Feature/bucket restructure
#65
kfang4
closed
2 weeks ago
1
scRNAseq "flavors", technology and sc vs sn
#64
ergonyc
opened
1 month ago
0
Depricate CellTyping? is under-constrained
#63
ergonyc
opened
1 month ago
1
CellAssign training parameter updates
#62
ergonyc
closed
1 week ago
0
update python env to 3.12
#61
ergonyc
opened
1 month ago
0
update scvi-tools to v1.2
#60
ergonyc
closed
1 week ago
0
Use wf-common submodule
#59
kfang4
closed
2 months ago
0
Add tool and library versions in README
#58
kfang4
closed
3 months ago
0
v.2.0 dataset release - wf updates
#57
ergonyc
opened
4 months ago
7
Feature/data integrity test
#56
kfang4
closed
3 months ago
3
Update workflow for v1.0.0 release
#55
ergonyc
opened
4 months ago
1
Feature/update manifest
#54
kfang4
closed
2 weeks ago
4
Feature/wdl ci
#53
kfang4
closed
5 months ago
0
Output the scib results SVG
#52
kfang4
closed
5 months ago
1
update workflow_diagram
#51
ergonyc
closed
5 months ago
2
Remove old PDFs
#50
kfang4
closed
5 months ago
0
old .pdf files for data dictionary file manifest
#49
ergonyc
closed
5 months ago
1
fix scib_report export bug
#48
kfang4
closed
5 months ago
0
Develop
#47
kfang4
closed
5 months ago
0
Upldate WDL to impliment the simple CI functions
#46
ergonyc
closed
5 months ago
0
Scib artifact metrics
#45
ergonyc
closed
5 months ago
0
add UMAP 1+2 to exported metadata
#44
ergonyc
closed
6 months ago
0
UMAPs needed in metadata
#43
ergonyc
closed
6 months ago
1
Add UMAP to metadata export
#42
ergonyc
closed
6 months ago
1
Feature/unembargoed scherzer
#41
kfang4
closed
7 months ago
0
Feature/staging buckets
#40
kfang4
closed
7 months ago
0
Feature/reduce storage
#39
kfang4
closed
7 months ago
0
Develop
#38
kfang4
closed
8 months ago
0
Feature/optimization
#37
kfang4
closed
8 months ago
0
Feature/update promote staging data script
#36
kfang4
closed
8 months ago
0
Feature/test full cohort
#35
kfang4
closed
8 months ago
0
Feature/test python wf
#34
kfang4
closed
8 months ago
0
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