Merge discvr-24.11 to develop#333

Merged

bbimber merged 60 commits intodevelopfrom

fb_merge_24.11_to_develop

Feb 5, 2025

Commits on Dec 13, 2024

Support mean.var.plot for HVGs
bbimber
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Commits on Dec 16, 2024

Add gt to install script
bbimber
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Commits on Dec 17, 2024

Commits on Dec 18, 2024

Commits on Dec 20, 2024

Commits on Dec 21, 2024

Update to nimble para parsing
bbimber
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Commits on Dec 22, 2024

Support decoupleR
bbimber
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Commits on Dec 24, 2024

Fix typo in decoupleR
bbimber
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Commits on Dec 27, 2024

Improve error message
bbimber
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Commits on Jan 2, 2025

Download the uncompressed SRA files to the temp folder, not work dir
bbimber
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Commits on Jan 3, 2025

Commits on Jan 6, 2025

Commits on Jan 7, 2025

Commits on Jan 8, 2025

Make DockerWrapper check whether pull needed before automatically pulling
bbimber
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Commits on Jan 9, 2025

Commits on Jan 13, 2025

Remove -S from fasterq-dump
bbimber
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Commits on Jan 16, 2025

Drop --include-technical
bbimber
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Commits on Jan 18, 2025

Support minAllowableSingletRate in cell hashing
bbimber
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Commits on Jan 20, 2025

Fix bug in logging
bbimber
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Commits on Jan 21, 2025

Include all algorithms in hashing, even if some are not in consensusMethods
bbimber
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Commits on Jan 23, 2025

Allow nimble append to support queryDatabaseForLineageUpdates
bbimber
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Commits on Jan 24, 2025

Commits on Jan 26, 2025

Commits on Jan 27, 2025

Commits on Jan 28, 2025

Support additional studies
bbimber
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Commits on Jan 29, 2025

Support nimble append
bbimber
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Commits on Feb 1, 2025

Commits on Feb 2, 2025

Support SVTyper
bbimber
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Commits on Feb 3, 2025

Commits on Feb 4, 2025