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HumanCellAtlas
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secondary-analysis
Secondary Analysis Service of the Human Cell Atlas Data Coordination Platform
https://pipelines.data.humancellatlas.org/ui/
BSD 3-Clause "New" or "Revised" License
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scATAC2 Pipeline Backlog
#669
kbergin
closed
5 years ago
0
[HCA] Add input file references to submission envelope
#668
kbergin
opened
5 years ago
0
Falcon: Use caas collection to control which workflows Falcon releases
#666
kbergin
opened
5 years ago
1
Optimus Pipeline Backlog
#665
kbergin
opened
5 years ago
0
Stop pullapprove on skylab from adding random reviewers who are not on the team
#663
kbergin
closed
5 years ago
2
Gotc docker in Optimus
#661
kbergin
closed
5 years ago
9
[HCA] Get "trusted_google_project" from service account key in pipeline-tools
#657
kbergin
opened
5 years ago
0
[SPIKE] AUD: Make no-op working in DCP
#654
kbergin
closed
5 years ago
8
Clean up broad-dsde-mint-dev storage to save $$$
#651
kbergin
closed
5 years ago
10
[SPIKE] Consider upgrading picard in Skylab
#649
kbergin
opened
5 years ago
0
Optimus: Remove GTF modification from scatter
#646
kbergin
opened
5 years ago
0
Optimus: fix aligner reference inefficiency
#644
kbergin
opened
5 years ago
0
scTools Cell qc metrics testing
#642
kbergin
opened
5 years ago
0
Does the Matrix service have what it needs to serve mouse matrices
#641
kbergin
closed
4 years ago
10
Optimus: Fix testing timeout
#640
kbergin
closed
4 years ago
1
Optimus: Fix test concurrency
#639
kbergin
closed
4 years ago
1
Optimus ModifyGtf doesn't seem to cache
#637
kbergin
closed
5 years ago
2
Investigate RunEmptyDrops error in HumanColonicMesenchymeIBD HCA dataset
#634
kbergin
closed
5 years ago
1
Secondary Analysis: verify that you have met the SLA for data redaction
#633
kozbo
opened
5 years ago
0
Promote SS2 SE/Fluidigm into DCP
#632
kbergin
opened
5 years ago
0
Update subscription to DSS to only receive data adhering to compatible schemas
#631
maniarathi
closed
5 years ago
1
Update test notification labels
#630
samanehsan
closed
5 years ago
0
Use token to access PUT/PATCH/POST to ingest endpoints
#629
justincc
closed
5 years ago
1
Upgrade hca cli to v6.2.0 or later
#628
parthshahva
closed
5 years ago
0
Optimus 1.3.0 - `CreateSparseCountMatrix` running out of disk space
#627
rhiananthony
closed
5 years ago
2
Spike: Tertiary Analysis for one dataset in the DCP
#626
kbergin
closed
5 years ago
0
Pipeline: Bulk RNA processing
#624
kbergin
closed
5 years ago
0
add force flag
#622
charlesdyan
closed
5 years ago
0
Init the new test suite
#621
rexwangcc
closed
5 years ago
0
Update Optimus dependency files
#620
samanehsan
closed
5 years ago
0
Optimus should output gene ids, not gene names
#619
mckinsel
closed
5 years ago
6
Remove unique identifiers from lambdas (if possible)
#618
mweiden
closed
5 years ago
0
Create a wrapper for alembic migrations
#617
mweiden
closed
5 years ago
0
Separate development applications into their own auth0 account
#616
mweiden
closed
5 years ago
0
User onboarding resources and API Documentation
#614
mweiden
closed
5 years ago
1
Fix a typo in the readme
#613
rexwangcc
closed
5 years ago
0
Clean up PR templates and add arch diagram.
#612
rexwangcc
closed
5 years ago
0
Update integration_test.sh
#611
rexwangcc
closed
5 years ago
0
Outputting the workflow URLs to make it a bit more useful.
#610
rexwangcc
closed
5 years ago
0
DCP Support for SS2 Flavors
#609
kbergin
closed
5 years ago
1
DCP Support for Mouse SS2 and 10X
#608
kbergin
closed
5 years ago
1
DCP supports scATAC-seq data
#607
kbergin
closed
5 years ago
1
[spike] Estimate implementation of no-op on receiving bundle updates
#606
justincc
closed
5 years ago
11
Capture appropriate alerts and audit trails so we can handle detected attacks and understand the consequences of emergent threats and breaches
#605
stahiri
closed
5 years ago
3
Update Optimus Deps.
#604
rexwangcc
closed
5 years ago
0
Ensure that metadata for the first data release is version-normalized
#603
mweiden
closed
5 years ago
1
Support Tertiary Analysis in the DCP
#602
kbergin
closed
5 years ago
0
Pipeline: Spatial Transcriptomics
#601
kbergin
closed
5 years ago
0
Pipeline: CODEX
#600
kbergin
closed
5 years ago
0
Pipeline: Tertiary Analysis for an individual dataset
#599
kbergin
closed
5 years ago
0
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